BROOKS AUTOMATION INC
10-Q, 2000-08-10
SPECIAL INDUSTRY MACHINERY, NEC
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<PAGE>   1
                                  UNITED STATES
                       SECURITIES AND EXCHANGE COMMISSION
                             Washington, D.C. 20549

                                    FORM 10-Q

(Mark One)

[X]    Quarterly Report Pursuant to Section 13 or 15(d) of the Securities
       Exchange Act of 1934

       For the quarterly period ended: June 30, 2000

                                       OR

[ ]    Transition Report Pursuant to Section 13 or 15(d) of the Securities
       Exchange Act of 1934

       For the transition period from _______ to _______


                         Commission File Number 0-25434
                                                -------

                             BROOKS AUTOMATION, INC.
             (Exact name of registrant as specified in its charter)

          Delaware                                  04-3040660
(State or other jurisdiction of                   (I.R.S. Employer
 incorporation or organization)                  Identification No.)

                               15 Elizabeth Drive
                            Chelmsford, Massachusetts
                    (Address of principal executive offices)

                                      01824
                                   (Zip Code)

       Registrant's telephone number, including area code: (978) 262-2400

                  ---------------------------------------------

Indicate by check mark whether the registrant: (1) has filed all reports
required to be filed by Section 13 or 15(d) of the Securities Exchange Act of
1934 during the preceding 12 months (or for such shorter period that the
registrant was required to file such reports), and (2) has been subject to such
filing requirements for the past 90 days.

                                   Yes X     No
                                      ---      ---

Indicate the number of shares outstanding of each of the registrant's classes of
common stock, as of the latest practical date (June 30, 2000):

     Common stock, $0.01 par value                         17,157,687 shares

<PAGE>   2

                             BROOKS AUTOMATION, INC.

                                      INDEX



                                                                     PAGE NUMBER
                                                                     -----------
PART I.    FINANCIAL INFORMATION
------     ---------------------

Item 1.    Consolidated Financial Statements

              Consolidated Balance Sheets as of June 30, 2000
                 and September 30, 1999 (unaudited)                       3

              Consolidated Statements of Operations for the
                 three and nine months ended June 30, 2000
                 and 1999 (unaudited)                                     4

              Consolidated Statements of Cash Flows for the nine
                 months ended June 30, 2000 and 1999 (unaudited)          5

              Notes to Consolidated Financial Statements (unaudited)      6

Item 2.    Management's Discussion and Analysis of Financial
              Condition and Results of Operations                        13

Item 3.    Quantitative and Qualitative Disclosures about Market Risk    25


PART II.   OTHER INFORMATION
-------    -----------------

Item 6.    Exhibits and Reports on Form 8-K                              26

Signatures                                                               27


<PAGE>   3


                             BROOKS AUTOMATION, INC.
                           CONSOLIDATED BALANCE SHEETS
                                   (unaudited)


<TABLE>
<CAPTION>

(In thousands, except share data)
                                                                              June 30,   September 30,
                                                                                2000        1999(1)
                                                                              --------   -------------
<S>                                                                           <C>          <C>
Assets
Current assets
  Cash and cash equivalents                                                   $233,263     $ 66,366
  Accounts receivable, net, including related party receivables of $6,275
    and $3,384, respectively                                                    84,843       35,570
  Inventories                                                                   53,454       38,274
  Prepaid expenses and other current assets                                      8,904        3,580
  Deferred income taxes                                                          7,022        6,542
                                                                              --------     --------
    Total current assets                                                       387,486      150,332

Fixed assets, net of accumulated depreciation of $38,226 and $25,551,
  respectively                                                                  28,178       18,185
Intangible assets, net of accumulated amortization of $14,916 and $1,890,
  respectively                                                                  57,660       16,228
Deferred income taxes                                                           15,920        4,192
Other assets                                                                     4,707        4,863
                                                                              --------     --------
        Total assets                                                          $493,951     $193,800
                                                                              ========     ========

LIABILITIES AND STOCKHOLDERS' EQUITY
Current liabilities
  Notes payable                                                               $ 16,000     $    213
  Revolving line of credit                                                           -        5,600
  Current portion of long-term debt and capital lease obligations                  741          537
  Accounts payable                                                              20,154       12,472
  Deferred revenue                                                              15,100        6,879
  Accrued compensation and benefits                                              8,230        4,909
  Accrued acquisition-related and restructuring costs                            3,356        3,868
  Accrued income taxes payable                                                   4,628        2,093
  Accrued expenses and other current liabilities                                19,176        8,367
                                                                              --------     --------
    Total current liabilities                                                   87,385       44,938

Long-term debt and capital lease obligations                                       437          801
Senior subordinated note payable                                                     -        5,878
Deferred income taxes                                                              377          174
Other long-term liabilities                                                        406          878
                                                                              --------     --------
        Total liabilities                                                       88,605       52,669
                                                                              --------     --------

Commitments and contingencies

Minority interests                                                               1,211        1,460
                                                                              --------     --------

Members' capital - 10,000 units issued and 1,000 units outstanding at
  September 30, 1999                                                                 -          930
                                                                              --------     --------

Stockholders' equity
  Preferred stock, $0.01 par value, 1,000,000 shares authorized, none
    issued and outstanding                                                           -            -
  Common stock, $0.01 par value,  43,000,000 shares authorized,  17,157,687
    and 12,760,084 shares issued and outstanding, respectively                     172          128
  Additional paid-in capital                                                   427,749      168,827
  Deferred compensation                                                            (42)         (65)
  Accumulated other comprehensive loss                                          (1,912)      (1,093)
  Accumulated deficit                                                          (21,832)     (29,056)
                                                                              --------     --------
        Total stockholders' equity                                             404,135      138,741
                                                                              --------     --------
        Total liabilities and stockholders' equity                            $493,951     $193,800
                                                                              ========     ========
</TABLE>


(1)   Amounts have been restated to reflect the acquisition of Irvine Optical
      Company LLC in a pooling of interests transaction effective May 5, 2000.


  The accompanying notes are an integral part of these consolidated financial
                                  statements.


                                       3
<PAGE>   4

                             BROOKS AUTOMATION, INC.
                      CONSOLIDATED STATEMENTS OF OPERATIONS
                                   (UNAUDITED)


(In thousands, except per share data)

<TABLE>
<CAPTION>
                                                                    Three months ended     Nine months ended
                                                                        June 30,                June 30,
                                                                    2000     1999(1)(2)   2000(1)     1999(1)(2)
                                                                   -------   ----------   -------     ----------
<S>                                                                <C>        <C>         <C>          <C>
Revenues
  Product, including related party revenues of $9,926 and
    $5,426 for the three month periods and $25,453 and
    $9,565 for the nine month periods, respectively                $71,487    $23,195     $184,423     $61,610
  Services                                                          16,340      5,859      37,357       15,309
                                                                   -------    -------     -------      -------
    Total revenues                                                  87,827     29,054     221,780       76,919
                                                                   -------    -------     -------      -------

Cost of revenues
  Product                                                           37,361     13,161      96,397       34,964
  Services                                                          10,551      3,602      22,990        9,555
                                                                   -------    -------     -------      -------
    Total cost of revenues                                          47,912     16,763     119,387       44,519
                                                                   -------    -------     -------      -------

Gross profit                                                        39,915     12,291     102,393       32,400
                                                                   -------    -------     -------      -------

Operating expenses
  Research and development                                          11,326      5,726      29,426       16,482
  Selling, general and administrative                               18,656      8,074      47,952       21,828
  Amortization of acquired intangible assets                         4,907         54      10,614          162
  Acquisition-related charges                                          677          -         677            -
                                                                   -------    -------     -------      -------
    Total operating expenses                                        35,566     13,854      88,669       38,472
                                                                   -------    -------     -------      -------

Income (loss) from operations                                        4,349     (1,563)     13,724       (6,072)
Interest income                                                      3,797        787       5,479        2,325
Interest expense                                                       319        351       1,112        1,151
Other income (expense)                                                (125)      (107)       (135)        (121)
                                                                   -------    -------     -------      -------

Income (loss) before income taxes and minority interests             7,702     (1,234)     17,956       (5,019)
Income tax provision (benefit)                                       5,357        (62)     10,842         (337)
                                                                   -------    -------     -------      -------

Income (loss) before minority interests                              2,345     (1,172)      7,114       (4,682)
Minority interests in earnings (loss) of consolidated subsidiary      (141)        37        (249)          37
                                                                   -------    -------     -------      -------

Net income (loss)                                                    2,486     (1,209)      7,363       (4,719)
Accretion and dividends on preferred stock                               -       (162)          -         (549)
                                                                   -------    -------     -------      -------

Net income (loss) attributable to common stockholders              $ 2,486    $(1,371)    $ 7,363      $(5,268)
                                                                   =======    =======     =======      =======

Earnings (loss) per share attributable to common
stockholders
  Basic                                                            $  0.15    $ (0.12)    $  0.51      $ (0.47)
  Diluted                                                          $  0.14    $ (0.12)    $  0.47      $ (0.47)

Shares used in computing earnings (loss) per share
  Basic                                                             16,934     11,129      14,568       11,110
  Diluted                                                           18,269     11,129      15,681       11,110

</TABLE>


(1)   Amounts for previously reported periods have been restated to reflect the
      acquisition of Irvine Optical Company LLC in a pooling of interests
      transaction effective May 5, 2000.

(2)   Amounts have been restated to reflect the acquisition of Smart Machines
      Inc. in a pooling of interests transaction effective August 31, 1999.



  The accompanying notes are an integral part of these consolidated financial
                                  statements.


                                       4
<PAGE>   5

                             BROOKS AUTOMATION, INC.
                      CONSOLIDATED STATEMENTS OF CASH FLOWS
                                   (UNAUDITED)


(In thousands)
<TABLE>
<CAPTION>

                                                                        Nine months ended
                                                                            June 30,
                                                                      2000(1)    1999(1)(2)
                                                                     --------    ----------
<S>                                                                  <C>          <C>
CASH FLOWS FROM OPERATING ACTIVITIES
Net income (loss)                                                    $  7,363     $(4,719)
Adjustments to reconcile net income (loss) to net cash provided by
  (used in) operating activities:
    Depreciation and amortization                                      18,338       6,777
    Compensation expense related to common stock options                   23         112
    Deferred income taxes                                                 851      (1,934)
    Minority interests                                                   (249)          -
    (Gain)loss on depreciable asset disposal                              (61)          -
    Changes in operating assets and liabilities:
      Accounts receivable                                             (38,939)        878
      Inventories                                                     (18,712)        324
      Prepaid expenses and other current assets                        (4,509)         56
      Accounts payable                                                 10,976         367
      Deferred revenue                                                  6,442         357
      Accrued acquisition-related and restructuring costs                (512)       (549)
      Accrued expenses and other current liabilities                    1,304       3,545
                                                                     --------     -------
          Net cash provided by (used in) operating activities         (17,685)      5,214
                                                                     --------     -------

CASH FLOWS FROM INVESTING ACTIVITIES
Purchases of fixed assets                                             (10,597)     (3,100)
Purchase of businesses, net of cash acquired                          (24,661)     (6,451)
Minority holder investment in joint venture                                 -       1,500
Proceeds from sale of depreciable assets                                  430           -
(Increase)decrease in other assets                                        116        (593)
                                                                     --------     -------
          Net cash used in investing activities                       (34,712)     (8,644)
                                                                     --------     -------

CASH FLOWS FROM FINANCING ACTIVITIES
Net increase (decrease) in short-term borrowings                            -        (192)
Net (repayments of) borrowings under lines of credit                   (5,263)        601
Proceeds from issuance of convertible notes                                 -       1,500
Payments of long-term debt and capital lease obligations                 (371)       (364)
Issuance of long-term debt                                                  -           -
Proceeds from issuance of common stock, net of issuance
  costs                                                               224,858         512
                                                                     --------     -------
          Net cash provided by financing activities                   219,224       2,057
                                                                     --------     -------

Elimination of net cash activities of Smart Machines for
  the three months ended December 31, 1998                                  -         (63)
                                                                     --------     -------

Elimination of net cash activities of Irvine Optical for the
   three months ended December 31, 1999                                    14           -
                                                                     --------     -------

Effects of exchange rate changes on cash and cash
  equivalents                                                              56         175
                                                                     --------     -------

Net increase (decrease) in cash and cash equivalents                  166,897      (1,261)
Cash and cash equivalents, beginning of period                         66,366      69,496
                                                                     --------     -------

Cash and cash equivalents, end of period                             $233,263     $68,235
                                                                     ========     =======
</TABLE>


(1)   Amounts for previously reported periods have been restated to reflect the
      acquisition of Irvine Optical Company LLC in a pooling of interests
      transaction effective May 5, 2000.

(2)   Amounts have been restated to reflect the acquisition of Smart Machines
      Inc. in a pooling of interests transaction effective August 31, 1999.



  The accompanying notes are an integral part of these consolidated financial
                                  statements.


                                       5
<PAGE>   6

                             BROOKS AUTOMATION, INC.
             NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (unaudited)


1.   BASIS OF PRESENTATION

     The unaudited consolidated financial statements of Brooks Automation, Inc.
     and its subsidiaries (the "Company") included herein have been prepared in
     accordance with generally accepted accounting principles. In the opinion of
     management, all material adjustments necessary for a fair presentation of
     the results for the periods presented have been reflected.

     The accompanying financial information should be read in conjunction with
     the consolidated financial statements and notes thereto contained in the
     Company's Annual Report on Form 10-K, filed with the United States
     Securities and Exchange Commission for the year ended September 30, 1999.

     On June 23, 2000, the Company acquired the assets of MiTeX Solutions
     ("MiTeX"). The acquisition was accounted for using the purchase method of
     accounting. The Company's Consolidated Statements of Operations and of Cash
     Flows for the three and nine months ended June 30, 2000 do not include any
     results of MiTeX, except for the cash payments made for consideration and
     transaction costs. The results of operations for MiTeX for the period from
     acquisition to June 30, 2000, are not material to the consolidated results
     of the Company.

     On May 5, 2000, the Company acquired Irvine Optical Company LLC ("Irvine
     Optical") in a transaction accounted for as a pooling of interests.
     Accordingly, the accompanying consolidated financial statements and notes
     thereto have been restated to include the financial position and results of
     operations of Irvine Optical for all periods prior to the acquisition.
     Additionally, the Company's Consolidated Statements of Operations and of
     Cash Flows for the three and nine months ended June 30, 1999 have also been
     restated to reflect the acquisition of Smart Machines Inc. ("Smart
     Machines") in a pooling of interests transaction effective August 31, 1999.

     On January 6, 2000, the Company acquired Auto-Soft Corporation ("ASC") and
     AutoSimulations, Inc. ("ASI") from Daifuku America Corporation ("Daifuku
     America"), a U.S. subsidiary of Daifuku Co., Ltd. of Japan. The acquisition
     was accounted for using the purchase method of accounting. Accordingly, the
     Company's Consolidated Statements of Operations and of Cash Flows for the
     three and nine months ended June 30, 2000 include the results of these
     acquired entities for the period subsequent to their acquisition.

     The Company made several acquisitions during fiscal year 1999 which were
     accounted for using the purchase method of accounting: the Infab Division
     ("Infab") of Jenoptik AG on September 30, 1999; Domain Manufacturing
     Corporation ("Domain") on June 30, 1999 and Hanyon Technology, Inc.
     ("Hanyon") on April 21, 1999. Accordingly, the Company's Consolidated
     Statements of Operations and of Cash Flows for the three and nine months
     ended June 30, 2000 include the results of these acquired entities. The
     Company's Consolidated Statements of Operations and of Cash Flows for the
     three and nine months ended June 30, 1999 include the results of these
     acquired entities for the periods subsequent to their respective
     acquisitions.

     In June 1999, the Company formed a joint venture in Korea with Samsung
     Electronics ("Samsung"). This joint venture is 70% owned by the Company and
     30% owned by Samsung. The Company consolidates fully the financial position
     and results of operations of the joint venture and accounts for the
     minority interest in the consolidated financial statements.

     Certain amounts in previously issued financial statements have been
     reclassified to conform to current presentation.

     In March 2000, the Financial Accounting Standards Board issued FASB
     Interpretation No. 44 ("FIN 44"), "Accounting for Certain Transactions
     Involving Stock Compensation - an interpretation of APB Opinion No. 25".
     FIN 44 clarifies the application of APB Opinion No. 25 ("APB 25"),
     including the following: the definition of an employee for purposes of
     applying APB 25; the criteria for determining whether a plan qualifies as a
     non-compensatory plan; the accounting consequences of various modifications
     to the terms of previously


                                       6
<PAGE>   7

                             BROOKS AUTOMATION, INC.
       NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (unaudited) - Continued



     fixed stock options or awards; and the accounting for an exchange of stock
     compensation awards in a business combination. FIN 44 is effective July 1,
     2000, but certain conclusions in FIN 44 cover specific events that occurred
     after either December 15, 1998 or January 12, 2000. The Company does not
     expect the application of FIN 44 to have a material impact on the Company's
     financial position or results of operations.

     In December 1999, the U.S. Securities and Exchange Commission ("SEC")
     issued Staff Accounting Bulletin No. 101 ("SAB 101"), "Revenue Recognition
     in Financial Statements". SAB 101 summarizes the SEC's views in applying
     generally accepted accounting principles to selected revenue recognition
     issues in financial statements.  In June 2000, the SEC issued Staff
     Accounting Bulletin No. 101B, an amendment to SAB 101, which delays the
     implementation of SAB 101. The application of the guidance in SAB 101 will
     now be required in the Company's fourth quarter of fiscal 2001. The Company
     is currently determining the impact that SAB 101 will have on its financial
     position and results of operations.


2.   BUSINESS ACQUISITIONS

     On June 23, 2000, the Company acquired substantially all of the assets of
     MiTeX. MiTeX, located in Canton, Michigan, provides run-to-run controller
     technology which will be a component of the Company's integrated Advanced
     Process Control strategy for advanced 200mm facilities and 300mm
     facilities. In consideration, the Company paid $300,000 cash, 5,486 shares
     of its common stock and the potential for an additional amount
     ("royalties") up to a maximum of $5.0 million in the aggregate over the
     next five years. These royalties will be calculated at the end of each year
     and are based on net revenue and gross margin performance of the MiTeX
     business unit. The acquisition was accounted for using the purchase method
     of accounting in accordance with Accounting Principles Board Opinion No.
     16, "Business Combinations" ("APB 16").

     On May 5, 2000, the Company acquired Irvine Optical in exchange for 309,013
     shares of Brooks common stock. Subsequently, the Company repaid a revolving
     credit facility of Irvine Optical in the amount of $6.7 million. The
     acquisition was accounted for as a pooling of interests. Irvine Optical, a
     California limited liability company located in Burbank, California, is
     engaged principally in the design, engineering and manufacturing of wafer
     handling and inspection equipment for sale primarily to the semiconductor
     industry.

     The accompanying consolidated financial statements and notes thereto have
     been restated to include the financial position and results of operations
     for Irvine Optical for all periods prior to the acquisition. The results of
     operations previously reported by the separate companies and the combined
     amounts presented in the accompanying Consolidated Statements of Operations
     are as follows (in thousands):


                             Three months ended         Nine months ended
                                   June 30,                 June 30,
                              2000         1999         2000        1999
                            --------    ---------    ---------    --------
Revenues
  Brooks Automation, Inc.   $ 82,000    $  26,428    $ 205,290    $ 69,986
   Irvine Optical LLC          5,827        2,626       16,490       6,933
                            --------    ---------    ---------    --------
                            $ 87,827    $  29,054    $ 221,780    $ 76,919
                            ========    =========    =========    ========

Net income (loss)
  Brooks Automation, Inc.   $  2,164    $    (483)   $   6,481    $ (2,622)
  Irvine Optical LLC             322         (726)         882      (2,097)
                            --------    ---------    ---------    --------
                            $  2,486    $  (1,209)   $   7,363    $ (4,719)
                            ========    =========    =========    ========


                                       7
<PAGE>   8

                             BROOKS AUTOMATION, INC.
       NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (unaudited) - Continued



     On January 6, 2000, the Company completed the acquisition of the businesses
     of ASC and ASI from Daifuku America. The acquisition was accounted for
     using the purchase method of accounting. The following pro forma results of
     operations have been prepared as though the acquisition had occurred as of
     the beginning of the fiscal year prior to the acquisition. This pro forma
     financial information does not purport to be indicative of the results of
     operations that would have been attained had the acquisition been made as
     of that date or of results of operations that may occur in the future (in
     thousands except per share data):


<TABLE>
<CAPTION>
                                                        Three months ended    Nine months ended
                                                             June 30,             June 30,
                                                          2000     1999       2000       1999
                                                        -------   -------    --------   --------

<S>                                                     <C>       <C>        <C>        <C>
Revenues                                                $87,827   $39,610    $227,672   $106,857
Net income (loss)                                       $ 2,255   $(5,094)   $    869   $(16,915)
Net income (loss) attributable to common stockholders   $ 2,255   $(5,256)   $    869   $(17,464)
Net income (loss) per share applicable to common
  stockholders                                          $  0.12   $ (0.45)   $   0.05   $  (1.50)

</TABLE>


3.   REVOLVING CREDIT FACILITY

     On May 2, 2000, the Company terminated its $30.0 million unsecured
     revolving credit facility, replacing it with a $10.0 million uncommitted
     demand promissory note credit facility with ABN AMRO Bank N.V. ("ABN
     AMRO"). The new facility is payable on demand or on December 31, 2001,
     whichever occurs first. ABN AMRO is not obligated to extend loans or issue
     letters of credit under this facility. The interest rates for borrowings
     and letters of credit under the facility are expressed in relation to LIBOR
     and a margin of 1.75%, or at 0.75% above ABN AMRO's base rate.
     Approximately $1.1 million in face amount of letters of credit outstanding
     under the revolving credit facility were transferred to the replacement
     facility. At June 30, 2000, $1.3 million of the facility was in use, all of
     it for letters of credit.


4.   EARNINGS (LOSS) PER SHARE

     The following table is a summary of net income (loss) attributable to
     common stockholders used in the calculation of basic and diluted earnings
     (loss) per share (in thousands):

<TABLE>
<CAPTION>

                                                          Three months ended   Nine months ended
                                                              June 30,            June 30,
                                                           2000      1999       2000      1999
                                                          ------    -------    ------    -------
<S>                                                       <C>       <C>        <C>       <C>
Net income (loss)                                         $2,486    $(1,209)   $7,363    $(4,719)
Accretion and dividends on preferred stock                    --       (162)       --       (549)
                                                          ------    -------    ------    -------
Net income (loss) applicable to common stockholders for
  basic and diluted earnings per share                    $2,486    $(1,371)   $7,363    $(5,268)
                                                          ======    =======    ======    =======

</TABLE>


                                       8
<PAGE>   9

                             BROOKS AUTOMATION, INC.
       NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (unaudited) - Continued


     The following table is a summary of shares used in calculating basic and
     diluted earnings (loss) per share (in thousands):

<TABLE>
<CAPTION>
                                                               Three months ended    Nine months ended
                                                                    June 30,             June 30,
                                                                2000       1999       2000       1999
                                                               ------     ------     ------     ------
<S>                                                            <C>        <C>        <C>        <C>
Weighted average number of shares used in computing basic
  earnings (loss) per share                                    16,934     11,129     14,568     11,110
Dilutive securities:
     Common stock options and warrants                          1,335         --      1,113         --
                                                               ------     ------     ------     ------
Shares used in computing diluted earnings (loss) per share     18,269     11,129     15,681     11,110
                                                               ======     ======     ======     ======
</TABLE>


     Options and warrants to purchase approximately 816,000 and 697,000 shares
     of common stock were excluded from the computation of diluted loss per
     share for the three and nine months ended June 30, 1999, respectively, as
     their effect would be antidilutive.


5.   COMPREHENSIVE INCOME (LOSS)

     Comprehensive income (loss) for the Company is computed as the sum of net
     income (loss) and the change in the cumulative translation adjustment.
     Comprehensive income was $2,337,000 and $6,544,000 for the three and nine
     month periods ended June 30, 2000, respectively. Comprehensive loss was
     $1,351,000 and $4,756,000 for the three and nine month periods ended June
     30, 1999, respectively.


6.   SEGMENT AND GEOGRAPHIC INFORMATION

     The Company has two reportable segments: tool automation and factory
     automation. The tool automation segment provides a full complement of
     semiconductor wafer and flat panel display substrate handling systems. Tool
     automation revenue is comprised of factory hardware, including factory
     interface hardware products, tool control software products, spare parts
     sales and tool control application consulting services. The factory
     automation segment provides software products for the semiconductor
     manufacturing execution system ("MES") market, including consulting and
     software customization.

     The Company evaluates performance and allocates resources based on revenues
     and operating income. Operating income for each segment includes selling,
     general and administrative expenses directly attributable to the segment.
     Amortization of acquired intangible assets is excluded from the segments'
     operating income. The Company's non-allocable overhead costs, which include
     corporate general and administrative expenses, are allocated between the
     segments based upon segment revenues.


                                       9
<PAGE>   10

                             BROOKS AUTOMATION, INC.
       NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (unaudited) - Continued



     Financial information for the Company's business segments is as follows (in
     thousands):

                                       Tool          Factory
                                    Automation     Automation      Total
                                    ----------     ----------     --------
Three months ended June 30, 2000
  Revenues                           $ 64,680       $23,147       $ 87,827
  Gross margin                       $ 24,416       $15,499       $ 39,915
  Operating income                   $  8,716       $ 1,217       $  9,933

Three months ended June 30, 1999
  Revenues                           $ 22,664       $ 6,390       $ 29,054
  Gross margin                       $  7,793       $ 4,498       $ 12,291
  Operating loss                     $ (1,378)      $  (131)      $ (1,509)

Nine months ended June 30, 2000
  Revenues                           $165,898       $55,882       $221,780
  Gross margin                       $ 63,300       $39,093       $102,393
  Operating income                   $ 19,729       $ 5,286       $ 25,015

Nine months ended June 30, 1999
  Revenues                           $ 61,329       $15,590       $ 76,919
  Gross margin                       $ 20,940       $11,460       $ 32,400
  Operating loss                     $ (5,301)      $  (609)      $ (5,910)


     A reconciliation of the Company's reportable segment operating income
     (loss) to the corresponding consolidated amounts for the three and nine
     month periods ended June 30, 2000 and 1999 is as follows (in thousands):

<TABLE>
<CAPTION>
                                               Three months ended       Nine months ended
                                                    June 30,                June 30,
                                                2000       1999         2000        1999
                                               ------     -------      -------     -------
<S>                                            <C>        <C>          <C>         <C>
Segment operating income (loss)                $9,933     $(1,509)     $25,015     $(5,910)
Amortization of acquired intangible assets      4,907          54       10,614         162
Acquisition-related charges                       677          --          677          --
                                               ------     -------      -------     -------
  Total operating income (loss)                $4,349     $(1,563)     $13,724     $(6,072)
                                               ======     =======      =======     =======
</TABLE>

     Net revenues by geographic area are as follows (in thousands):


                            Three months ended       Nine months ended
                                June 30,                  June 30,
                             2000       1999          2000        1999
                           -------     --------     --------     -------
North America              $46,903     $ 18,330     $111,741     $44,097
Asia                        28,647        8,811       71,486      23,175
Europe                      12,277        1,913       38,553       9,647
                           -------     --------     --------     -------
                           $87,827     $ 29,054     $221,780     $76,919
                           =======     ========     ========     =======


                                       10
<PAGE>   11

                             BROOKS AUTOMATION, INC.
       NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (unaudited) - Continued


7.   SIGNIFICANT CUSTOMERS AND RELATED PARTY INFORMATION

     One of the Company's directors is also a director of one of the Company's
     customers. Net revenue recognized from this customer was $9,926,000 and
     $5,426,000, or 11.3% and 18.7% of revenues, in the three months ended June
     30, 2000 and 1999, respectively. Net revenue recognized from this customer
     in the nine months ended June 30, 2000 and 1999, was $25,453,000 and
     $9,565,000, or 11.5% and 12.4% of revenues, respectively. Amounts due from
     this customer included in accounts receivable at June 30, 2000 and
     September 30, 1999 were $6,275,000 and $3,384,000, respectively. Related
     party amounts included in accounts receivable are on standard terms and
     manner of settlement.


     In both the three and nine month periods ended June 30, 2000, the Company
     had no other customer that accounted for more than 10% of revenues. In the
     three months ended June 30, 1999, one other customer accounted for more
     than 10% of revenues; sales to this customer were 10.1% of revenues for the
     period. The Company had no other customer who accounted for more than 10%
     of revenues in the nine months ended June 30, 1999.


8.   ACCOUNTS RECEIVABLE

     Accounts receivable consist of the following (in thousands):

                             June 30,   September 30,
                              2000          1999
                             -------    -------------
     Accounts receivable     $87,067       $37,306
     Less allowances           2,224         1,736
                             -------       -------
                             $84,843       $35,570
                             =======       =======


9.   INVENTORIES

     Inventories consist of the following (in thousands):

                                           June 30,   September 30,
                                             2000         1999
                                           -------    -------------
     Raw materials and purchased parts     $38,396       $23,062
     Work-in-process                         8,503        10,154
     Finished goods                          6,555         5,058
                                           -------       -------
                                           $53,454       $38,274
                                           =======       =======


                                       11
<PAGE>   12

                             BROOKS AUTOMATION, INC.
       NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (unaudited) - Continued



10.  INTANGIBLE ASSETS

     Intangible assets consist of the following (in thousands):

                                         June 30,    September 30,
                                          2000          1999
                                         -------     -------------
     Patents                             $ 7,107       $ 7,127
     Capitalized software                  3,761            --
     License agreements                      635            --
     Goodwill                             61,073        10,991
                                         -------       -------
                                          72,576        18,118
     Less accumulated amortization        14,916         1,890
                                         -------       -------
                                         $57,660       $16,228
                                         =======       =======


11.  ACQUISITION-RELATED AND RESTRUCTURING LIABILITIES

     The activity related to the Company's acquisition-related and restructuring
     liabilities during the nine months ended June 30, 2000 is below (in
     thousands):


                              Balance                      Balance
                           September 30,                   June 30,
                               1999        Utilization      2000
                           ------------    -----------     --------
     Facilities               $ 1,145        $  (139)       $1,006
     Depreciable assets            --             --            --
     Workforce-related          2,512           (323)        2,189
     Other                        211            (50)          161
                              -------        -------        ------
                              $ 3,868        $  (512)       $3,356
                              =======        =======        ======


12.  CONTINGENCIES

     There has been substantial litigation regarding patent and other
     intellectual property rights in the semiconductor and related industries.
     The Company has received notice from a third party alleging infringements
     of such party's patent rights by certain of the Company's products. The
     Company's patent counsel is investigating the claim and the Company
     believes the patents claimed may be invalid. In the event of litigation
     with respect to this claim, the Company is prepared to vigorously defend
     its position. However, because patent litigation can be extremely expensive
     and time consuming, the Company may seek to obtain a license to one or more
     of the disputed patents. Based upon currently available information, the
     Company would only do so if such license fees would not be material to the
     Company's consolidated financial statements. Currently, the Company does
     not believe it is probable that the future events related to this
     threatened matter would have an adverse effect on the Company's business.


                                       12
<PAGE>   13

                             BROOKS AUTOMATION, INC.

Item 2. MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION AND RESULTS
        OF OPERATIONS



FORWARD-LOOKING STATEMENTS

Certain statements in this quarterly report constitute "forward-looking
statements" which involve known risks, uncertainties and other factors which may
cause the actual results, performance or achievements of Brooks Automation, Inc.
("Brooks" or the "Company") to be materially different from any future results,
performance or achievements expressed or implied by such forward-looking
statements. For a further discussion of the various risks affecting the
business, refer to "Factors That May Affect Future Results" appearing at the end
of this Management's Discussion and Analysis of Financial Condition and Results
of Operations. Precautionary statements made herein should be read as being
applicable to all related forward-looking statements wherever they appear in
this report.

OVERVIEW

The Company is a leading supplier of integrated tool and factory automation
solutions for the global semiconductor and related industries such as the data
storage and flat panel display manufacturing industries. The Company's product
revenues include sales of hardware and software products. The Company's service
revenues are primarily comprised of tool control application consulting
services, consulting, software customization and spare parts sales.

Many of the Company's customers purchase the Company's vacuum transfer robots
and other modules before purchasing the Company's vacuum central wafer handling
systems. The Company believes that once a customer has selected the Company's
products for a process tool, the customer is likely to rely on those products
for the life of that process tool model, which can be in excess of five years.
Conversely, losing a bid for a manufacturing execution system ("MES") does not
preclude the Company from securing optimization products to fit with a
competitor's MES.

A significant portion of the Company's revenues have been generated by sales to
customers in the United States, although the Company believes that a significant
portion of these customers incorporate the Company's products into equipment
sold to their foreign customers. The Company's foreign sales have occurred
principally in Asia and Europe. Sales in Asia have occurred primarily in Japan
and South Korea, and, to a lesser extent, in Taiwan and Singapore.

The Company's foreign revenues are generally denominated in United States
dollars. Accordingly, foreign currency fluctuations have not had a significant
impact on the comparison of the results of operations for the periods presented.
The costs and expenses of the Company's international subsidiaries are generally
denominated in currencies other than the United States dollar. However, since
the functional currency of the Company's international subsidiaries is the local
currency, foreign currency translation adjustments are reflected as a component
of stockholders' equity under the caption "Accumulated other comprehensive
income (loss)". To the extent that the Company expands its international
operations or changes its pricing practices to denominate prices in foreign
currencies, the Company will be exposed to increased risk of currency
fluctuation.

The Company's business is highly dependent upon the capital expenditures of
semiconductor and flat panel display manufacturers which historically have been
cyclical, and the Company's ability to develop, manufacture and sell new
products and product enhancements. The Company's results will also be affected,
especially when measured on a quarterly basis, by the volume, composition and
timing of orders, conditions in industries served by the Company, competition
and general economic conditions.


                                       13
<PAGE>   14

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued


BASIS OF PRESENTATION

On June 23, 2000, the Company acquired the assets of MiTeX Solutions ("MiTeX").
The acquisition was accounted for using the purchase method of accounting. The
Company's Consolidated Statements of Operations and of Cash Flows for the three
and nine months ended June 30, 2000 do not include any results of MiTeX, except
for the cash payments made for consideration and transaction costs. The results
of operations for MiTeX for the period from acquisition to June 30, 2000, are
not material to the consolidated results of the Company.

On May 5, 2000, the Company acquired Irvine Optical Company LLC ("Irvine
Optical") in a transaction accounted for as a pooling of interests. Accordingly,
the Company's consolidated financial statements have been restated to include
the financial position and results of operations of Irvine Optical for all
periods prior to the acquisition. Additionally, the Company's Consolidated
Statements of Operations and of Cash Flows for the three and nine months ended
June 30, 1999 have also been restated to reflect the acquisition of Smart
Machines Inc. ("Smart Machines") in a pooling of interests transaction effective
August 31, 1999.

On January 6, 2000, the Company completed the acquisition of the businesses of
Auto-Soft Corporation ("ASC") and AutoSimulations, Inc. ("ASI") from Daifuku
America Corporation ("Daifuku America"), a U.S. subsidiary of Daifuku Co., Ltd.
of Japan. The acquisition was accounted for using the purchase method of
accounting. Accordingly, the Company's Consolidated Statements of Operations and
of Cash Flows for the three and nine months ended June 30, 2000 include the
results of ASC and ASI for the period subsequent to their acquisition.

The Company made several acquisitions during fiscal year 1999 which were
accounted for using the purchase method of accounting: the Infab Division
("Infab") of Jenoptik AG on September 30, 1999; Domain Manufacturing Corporation
("Domain") on June 30, 1999 and Hanyon Technology, Inc. ("Hanyon") on April 21,
1999. Accordingly, the Company's Consolidated Statements of Operations and of
Cash Flows for the three and nine months ended June 30, 2000 include the results
of these acquired entities.

In June 1999, the Company formed a joint venture in Korea with Samsung
Electronics ("Samsung"). This joint venture is 70% owned by the Company and 30%
owned by Samsung. The Company consolidates fully the financial position and
results of operations of the joint venture and accounts for the minority
interest in the financial statements.


RESULTS OF OPERATIONS

THREE AND NINE MONTHS ENDED JUNE 30, 2000, COMPARED TO THREE AND NINE MONTHS
ENDED JUNE 30, 1999

The Company reported net income of $2.5 million for the three months ended June
30, 2000, compared to a net loss of $1.2 million in the same prior year period.
Net income for the nine months ended June 30, 2000 was $7.4 million, compared to
a net loss of $4.7 million in the same prior year period. Net income before
amortization of acquired intangible assets and acquisition-related charges, net
of taxes, was $8.1 million and $18.1 million for the three and nine months ended
June 30, 2000, respectively. For the three and nine months ended June 30, 1999,
the Company had net losses of $1.0 million and $4.8 million, respectively,
before amortization of acquired intangible assets, net of taxes. There were no
acquisition-related charges recorded by the Company in either of these prior
year periods.

REVENUES

The Company reported revenues of $87.8 million in the three months ended June
30, 2000, compared to $29.1 million in the same prior year period. For the nine
months ended June 30, 2000, the Company reported revenues of $221.8 million.
This compares to revenues of $76.9 million in the nine months ended June 30,
1999. The increase in total revenue is attributable to both of the Company's
operating segments, with the factory automation segment showing slightly higher
increases, on a percentage basis, than the tool automation segment, for both the
three and nine month periods ended June 30, 2000, compared to the same prior
year periods. The factory automation segment's higher growth rate is the result
of acquisitions combined with higher sales volume. Product revenues more than
tripled, to $71.5 million, in the three months ended June 30, 2000, compared to
$23.2 million in


                                       14
<PAGE>   15

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued


the three months ended June 30, 1999. Product revenues of $184.4 million for the
nine months ended June 30, 2000, were virtually triple the $61.6 million
reported in the same prior year. This growth is primarily attributable to
acquisitions and the overall strength in the original equipment manufacturer
("OEM") and End User markets. Service revenues for the three months ended June
30, 2000 were $16.3 million, an increase of $10.5 million, or 178.9%, from the
three months ended June 30, 1999. Service revenues for the nine months ended
June 30, 2000 increased $22.0 million, or 144.0%, for the nine months ended June
30, 2000, from $15.3 million in the nine months ended June 30, 1999. These
increases are primarily the result of the Company's acquisitions and the impact
of those acquisitions on consulting services associated with factory automation.

Foreign revenues were $40.9 million, or 46.6% of revenues, and $10.7 million, or
36.9% of revenues, in the three month periods ended June 30, 2000 and 1999,
respectively. For the nine month periods ended June 30, 2000 and 1999, foreign
revenues were $110.0 million, or 49.6% of revenues, and $32.8 million, or 42.7%
of revenues, respectively. The increase is primarily the result of the Company's
expanded global presence from its recent acquisitions. The Company expects that
foreign revenues will continue to account for a significant portion of total
revenues.

GROSS PROFIT

Gross profit increased to 45.4% for the three months ended June 30, 2000,
compared to 42.3% for the same prior year period. Gross profit for the nine
months ended June 30, 2000 was 46.2%, an increase from 42.1% for the comparable
prior year period. The Company's tool automation segment gross profit increased
overall, to 37.7% and 38.2% for the three and nine months ended June 30, 2000,
from 34.4% and 34.1% for the comparable prior year periods. Gross profit for the
Company's factory automation segment declined slightly, to 67.0% and 70.0% for
the three and nine months ended June 30, 2000, from 70.4% and 73.5% for the
three and nine months ended June 30, 1999. This decline is primarily
attributable to the acquired service business of ASC, which has a historically
lower margin structure than that of the Company.

Gross profit on product revenues increased to 47.7% for the three months ended
June 30, 2000, from 43.3% in the comparable prior year period. Gross profit on
product revenues increased to 47.7% for the nine months ended June 30, 2000,
from 43.2% in the same prior year period. The increase in both the three and
nine month periods is primarily attributable to improvements in manufacturing
capacity utilization and the acquisition of higher margin software product
businesses, partially offset by the Infab operations' historically lower margin
structure. In future periods, gross profit may be adversely affected by changes
in product mix or price competition.

Gross profit on service revenues was 35.4% for the three months ended June 30,
2000, a decrease from 38.5% for the three months ended June 30, 1999. The
decrease is primarily attributable to business mix within the June 30, 2000
quarter. However, gross profit on service revenues increased for the nine months
ended June 30, 2000, compared to the same prior year period. Gross profit on
service revenues for the nine months ended June 30, 2000 and 1999 was 38.5% and
37.6%, respectively. This increase is primarily the result of improved market
conditions and overall change in service mix. Included in the cost of services
revenues are global support customer costs, consisting primarily of personnel
costs and travel expenses.

RESEARCH AND DEVELOPMENT

Research and development expenses for the three months ended June 30, 2000 were
$11.3 million, an increase of $5.6 million, compared to $5.7 million in the
three months ended June 30, 1999. Research and development expenses for the nine
months ended June 30, 2000 were $29.4 million, an increase of $12.9 million, or
78.5%, compared to the same prior year period. However, research and development
expenses decreased as a percentage of revenues in both the three and nine month
periods ended June 30, 2000, to 12.9% and 13.3%, respectively. This compares to
19.7% and 21.4% of revenues in the three and nine months ended June 30, 1999,
respectively. The


                                       15
<PAGE>   16

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued



increase in absolute spending is the result of the research and development
efforts related to the Company's recent acquisitions as well as incremental
spending associated with the launch of new atmospheric products and the
transition to the next generation vacuum wafer handling products, partially
offset by the elimination of redundant research and development programs. The
Company will continue to invest in research and development to enhance existing
and develop new tool and factory hardware and software automation solutions for
the semiconductor, data storage and flat panel display manufacturing industries.

SELLING, GENERAL AND ADMINISTRATIVE

Selling, general and administrative expenses were $18.7 million for the three
months ended June 30, 2000, an increase of $10.6 million, compared to $8.1
million in the same prior year period. Selling, general and administrative
expenses increased by $26.1 million, to $47.9 million for the nine months ended
June 30, 2000, compared to $21.8 million in the nine months ended June 30, 1999.
However, selling, general and administrative expenses decreased as a percentage
of revenues in both the three and nine month periods ended June 30, 2000, to
21.2% and 21.6%, respectively. This compares to 27.8% and 28.4% of revenues in
the three and nine months ended June 30, 1999, respectively. The increase in
absolute spending is the result of expanded sales and marketing activities as
well as general and administration support costs associated with the Company's
recently completed acquisitions and infrastructure improvements, while the
improvement of these costs as a percentage of revenues reflects the Company's
efforts at expanding its product offerings and customer base.

AMORTIZATION OF ACQUIRED INTANGIBLE ASSETS

Amortization expense for acquired intangible assets totaled $4.9 million and
$10.6 million in the three and nine months ended June 30, 2000, and relates to
acquired intangible assets of the ASC and ASI acquisition, which was consummated
January 6, 2000, the Infab, Domain and Hanyon acquisitions, all of which
occurred during the second half of fiscal 1999 and Irvine Optical's acquisition
of a corporation in March 1997. Amortization expense for acquired intangible
assets was $0.1 million and $0.2 million in the three and nine months ended June
30, 1999, respectively, and relates to Irvine Optical.

ACQUISITION-RELATED CHARGES

Acquisition-related charges of $0.7 million in both the three and nine month
periods ended June 30, 2000 relate primarily to transaction costs in connection
with the May 5, 2000 acquisition of Irvine Optical. There were no
acquisition-related charges recorded in the comparable prior year periods.

INTEREST INCOME AND EXPENSE

Interest income increased by $3.0 million, to $3.8 million, in the three months
ended June 30, 2000, and by $3.2 million, to $5.5 million, in the nine months
ended June 30, 2000, due primarily to higher cash and investment asset balances
which resulted from the Company's public offering of shares of common stock in
March 2000. Interest income was $0.8 million and $2.3 million in the three and
nine months ended June 30, 1999. Interest expense of $0.3 million and $0.4
million for the three months ended June 30, 2000 and 1999, respectively, and
$1.1 million and $1.2 million for the corresponding nine month periods then
ended, relates primarily to Irvine Optical's debt, which was discharged in the
current quarter. Also included in interest expense for the three and nine months
ended June 30, 2000 is interest on the Company's note payable to Daifuku America
related to the acquisition of ASC and ASI.

INCOME TAX PROVISION (BENEFIT)

The Company recorded net income tax expense of $10.8 million and net tax
benefits of $0.3 million for the nine months ended June 30, 2000 and 1999,
respectively. The tax provision is attributable to federal, state, foreign and
withholding taxes. Federal and state taxes have been reduced for net operating
losses, research and development tax credits and a foreign sales corporation
benefit.


                                       16
<PAGE>   17

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued



LIQUIDITY AND CAPITAL RESOURCES

Cash and cash equivalents were $233.3 million at June 30, 2000, an increase of
$166.9 million from September 30, 1999. The Company realized proceeds, net of
issuance costs, of approximately $220 million from a public offering of shares
of its common stock in March 2000. In connection with its acquisition of ASC and
ASI on January 6, 2000, the Company paid Daifuku America $27.0 million in cash
and issued Daifuku America a note in the amount of $16.0 million, which is due
on January 6, 2001. In addition, the Company paid Irvine Optical's $6.7 million
revolving credit facility balance subsequent to its acquisition in May 2000.

Cash used in operations was $17.7 million, and is primarily attributable to
increases in accounts receivable, inventories and prepaid expenses and other
current assets of $38.9 million, $18.7 million and $4.5 million, respectively,
partially offset by depreciation and amortization of $18.3 million, and
increases of $11.0 million and $1.3 million in accounts payable and accrued
expenses and other current liabilities, respectively. The increase in accounts
receivable and inventories is primarily attributable to the Company's recent
rapid growth. The Company's increased sales, particularly in Asia, combined with
a greater number of long-term project contracts, have also contributed to the
increase in accounts receivable.

Cash used in investing activities was $34.7 million, and was principally
comprised of $24.7 million used for the purchase of businesses, net of cash
acquired (primarily the acquisition of ASC and ASI) and $10.6 million used for
capital additions, primarily in telecommunications, systems infrastructure and
for computer requirements, including expenditures needed to accommodate the
Company's expanding capacity needs, including the completion of its additional
facility in Chelmsford, Massachusetts.

Cash provided by financing activities was $219.2 million, comprised of $224.9
million of proceeds from the issuance of common stock, net of issuance costs,
partially offset by $5.3 million for net repayments on the revolving credit
facility pooled in the acquisition of Irvine Optical and $0.4 million for the
payment of prior long-term debt of the Company.

While the Company has no significant capital commitments, as it expands its
product offerings and prepares for expected growth, the Company anticipates that
it will continue to make capital expenditures to support its business. The
Company may also use its resources to acquire companies, technologies or
products that complement the business of the Company.

Because of its strong cash position, the Company terminated its $30.0 million
unsecured revolving credit facility and replaced it with a $10.0 million
uncommitted demand promissory note facility with ABN AMRO Bank N.V. ("ABN AMRO")
on May 2, 2000. The Company transferred all of its outstanding letters of
credit, totaling approximately $1.1 million, to the new facility. ABN AMRO is
not obligated to extend loans or issue letters of credit under this new
facility. At June 30, 2000, $1.3 million of the facility was in use, all of it
for letters of credit.

The Company believes that its existing resources will be adequate to fund the
Company's currently planned working capital and capital expenditure requirements
for at least the next twelve months. The sufficiency of the Company's resources
to fund its needs for capital is subject to known and unknown risks,
uncertainties and other factors which may have a material adverse effect on the
Company's business, including, without limitation, the factors discussed under
"Factors That May Affect Future Results."


                                       17
<PAGE>   18

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued



RECENTLY ENACTED ACCOUNTING PRONOUNCEMENTS

In March 2000, the Financial Accounting Standards Board issued FASB
Interpretation No. 44 ("FIN 44"), "Accounting for Certain Transactions Involving
Stock Compensation - an interpretation of APB Opinion No. 25". FIN 44 clarifies
the application of APB Opinion No. 25 ("APB 25"), including the following: the
definition of an employee for purposes of applying APB 25; the criteria for
determining whether a plan qualifies as a non-compensatory plan; the accounting
consequences of various modifications to the terms of previously fixed stock
options or awards; and the accounting for an exchange of stock compensation
awards in a business combination. FIN 44 is effective July 1, 2000, but certain
conclusions in FIN 44 cover specific events that occurred after either December
15, 1998 or January 12, 2000. The Company does not expect the application of FIN
44 to have a material impact on the Company's financial position or results of
operations.

In December 1999, the U.S. Securities and Exchange Commission ("SEC") issued
Staff Accounting Bulletin No. 101 ("SAB 101"), "Revenue Recognition in Financial
Statements". SAB 101 summarizes the SEC's views in applying generally accepted
accounting principles to selected revenue recognition issues in financial
statements. In June 2000, the SEC issued Staff Accounting Bulletin No. 101B, an
amendment to SAB 101, which delays the implementation of SAB 101. The
application of the guidance in SAB 101 will now be required in the Company's
fourth quarter of fiscal 2001. The Company is currently determining the impact
that SAB 101 will have on its financial position and results of operations.

FACTORS THAT MAY AFFECT FUTURE RESULTS

You should carefully consider the risks described below and the other
information in this report before deciding to invest in shares of our common
stock. While these are the risks and uncertainties we believe are most important
for you to consider, you should know that they are not the only risks or
uncertainties facing us or which may adversely affect our business. If any of
the following risks or uncertainties actually occur, our business, financial
condition and operating results would likely suffer. In that event, the market
price of our common stock could decline and you could lose all or part of the
money you paid to buy our common stock.

                        RISKS RELATING TO OUR OPERATIONS

         The Cyclical Demand of Semiconductor Manufacturers Affects our
Operating Results. Our business is significantly dependent on capital
expenditures by semiconductor manufacturers. The level of semiconductor
manufacturers' capital expenditures is dependent on the current and anticipated
market demand for semiconductors. Demand for semiconductors is cyclical and has
historically experienced periodic downturns. During these downturns, our
revenues have dropped, and we have incurred losses. We believe that downturns in
the semiconductor manufacturing industry will occur in the future and will
result in decreased demand for our products. Despite the addition of our factory
automation business in fiscal 1999, our financial results will continue to be
dependent on capital expenditures by semiconductor manufacturers. Downturns in
the semiconductor business, when fewer new facilities are being built, could
harm our financial results as have downturns in the past.

         Our Sales Volume Depends on the Sales Volume of our Original Equipment
Manufacturer Customers. We sell a majority of our tool automation products to
original equipment manufacturers who incorporate our products into their
equipment. Therefore, our revenues are directly dependent on the ability of
these customers to develop and market their equipment in a timely,
cost-effective manner.

         We Rely on a Small Number of Customers for a Large Portion of our
Revenues. We receive a significant portion of our revenues in each fiscal period
from a limited number of customers. The loss of one or more of these major
customers, or a decrease in orders by one or more customers, would adversely
affect our business. Sales to our ten largest customers accounted for
approximately 43% of total revenues in the nine months ended June 30, 2000 and
57% of total revenues in fiscal 1999.


                                       18
<PAGE>   19

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued


         Delays in Shipment of a Few of our Large Orders Could Substantially
Decrease our Revenues. Historically, a substantial portion of our quarterly and
annual revenues came from sales of a small number of large orders. These orders
consist of products with high selling prices compared to our other products. As
a result, the timing of the recognition of revenue from one of these large
orders can have a significant impact on our total revenues and operating results
for a particular period. Our operating results could be harmed if orders for
even a small number of large orders are canceled or rescheduled by customers or
cannot be filled due to delays in manufacturing, testing, shipping or product
acceptance.

         We Have Significant Fixed Costs Which Are Not Easily Reduced if
Revenues Fall Below Expectations. Our expense levels are based in part on our
future revenue expectations. Many of our expenses, particularly those relating
to capital equipment and manufacturing overhead, are relatively fixed. If we do
not meet our sales goals we may be unable to rapidly reduce these fixed costs.
Our ability to reduce expenses is further constrained because we must continue
to invest in research and development to maintain our competitive position to
maintain service and support for our existing global customer base. Accordingly,
if we suffer an unexpected downturn in revenue, our inability to reduce fixed
costs rapidly could increase the adverse impact on our results of operations.

         Our Lengthy Sales Cycle Requires Us to Incur Significant Expenses With
No Assurance That We Will Generate Revenue. Our tool automation products are
generally incorporated into original equipment manufacturer equipment at the
design stage. To obtain new business from our original equipment manufacturer
customers, we must develop products for selection by a potential customer at the
design stage. This often requires us to make significant expenditures, without
any assurance of success. The original equipment manufacturer's design decisions
often precede the generation of volume sales, if any, by a year or more. We also
must complete successfully a lengthy evaluation period before we can achieve
volume sales of our manufacturing execution system software and process
optimization software to our factory automation customers. We cannot guarantee
that we will continue to achieve design wins or satisfy evaluations by our
factory automation customers of our software. We cannot guarantee that the
equipment manufactured by our original equipment manufacturing customers will be
commercially successful. If we or our original equipment manufacturing customers
fail to develop and introduce new products successfully and in a timely manner,
our business and financial results will suffer.

         Our International Business Operations Expose Us to a Number of
Difficulties in Coordinating Our Activities Abroad and in Dealing with Multiple
Regulatory Environments. Approximately 50% of our total revenues in the nine
months ended June 30, 2000, and 42% of our total revenues in fiscal 1999, were
derived from customers located outside North America. We anticipate that
international sales will continue to account for a significant portion of our
revenues. Our vendors are located in several different foreign countries. As a
result of our international business operations, we are subject to various
risks, including:

     -    difficulties in staffing and managing operations in multiple locations
          in many countries;

     -    challenges presented by collecting trade accounts receivable in
          foreign jurisdictions;

     -    possible adverse tax consequences;

     -    governmental currency controls;

     -    changes in various regulatory requirements;

     -    political and economic changes and disruptions; and

     -    export/import controls and tariff regulations.


                                       19
<PAGE>   20

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued


Although our international sales are primarily denominated in U.S. dollars,
changes in currency exchange rates can make it more difficult for us to compete
with foreign manufacturers on price. If our international sales increase
relative to our total revenues, these factors could have a more pronounced
effect on our operating results.

         We Must Continually Improve Our Technology to Remain Competitive.
Technology changes rapidly in the semiconductor, data storage and flat panel
display manufacturing industries. We believe our success will depend upon our
ability to enhance our existing products and to develop and market new products
to meet customer needs. We cannot guarantee that we will identify and adjust to
changing market conditions or succeed in introducing commercially rewarding
products or product enhancements. The success of our product development and
introduction depends on a number of factors, including:

     -    accurately identifying and defining new products;

     -    completing and introducing new product designs in a timely manner;

     -    market acceptance of our products and our customers' products; and

     -    determining a comprehensive, integrated product strategy.

         We Face Significant Competition Which Could Result in Decreased Demand
For Our Products or Services. The markets for our products are intensely
competitive and we may not be able to compete successfully. We believe that our
primary competition in the tool automation market is from integrated original
equipment manufacturers that satisfy their semiconductor and flat panel display
handling needs themselves rather than by purchasing systems or modules from an
independent supplier like us. Many of these original equipment manufacturers
have substantially greater resources than we do. Applied Materials, Inc., the
leading process equipment original equipment manufacturer, develops and
manufactures its own central wafer handling systems and modules. We may not be
successful in selling our products to original equipment manufacturers that
currently satisfy their wafer or substrate handling needs themselves, regardless
of the performance or the price of our products. Moreover, integrated original
equipment manufacturers may begin to commercialize their handling capabilities
and become our competitors.

We believe that the primary competitive factors in the end-user semiconductor
manufacturer market for factory automation software and process control software
are product functionality, price/performance, ease of use, hardware and software
platform compatibility, vendor reputation and financial stability. The relative
importance of these competitive factors may change over time. We directly
compete in this market with various competitors, including Applied
Materials-Consilium, PRI-Promis, IBM-Poseidon and numerous small, independent
software companies. We also compete with the in-house software staffs of
semiconductor manufacturers like NEC. Most of those manufacturers have
substantially greater resources than us.

We believe that the primary competitive factors in the factory interface market
are technical and technological capabilities, reliability, price/performance,
ease of integration and global sales and support capability. In this market, we
compete directly with Asyst, Fortrend, Kensington and Rorze. Some of these
competitors have substantial financial resources and extensive engineering,
manufacturing and marketing capabilities.


                                       20
<PAGE>   21

                            BROOKS AUTOMATION, INC.
          MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                     AND RESULTS OF OPERATIONS - Continued


         Much of Our Success and Value Lies in Our Ownership and Use of
Intellectual Property and Our Failure to Protect That Property Could Adversely
Affect Our Future Growth. Our ability to compete is heavily affected by our
ability to protect our intellectual property. We rely primarily on trade secret
laws, confidentiality procedures, patents, copyrights, trademarks and licensing
arrangements to protect our intellectual property. The steps we have taken to
protect our technology may be inadequate. Existing trade secret, trademark and
copyright laws offer only limited protection. Our patents could be invalidated
or circumvented. The laws of certain foreign countries in which our products are
or may be developed, manufactured or sold may not fully protect our products or
intellectual property rights. This may make the possibility of piracy of our
technology and products more likely. We cannot guarantee that the steps we have
taken to protect our intellectual property will be adequate to prevent
misappropriation of our technology. There has been substantial litigation
regarding patent and other intellectual property rights in semiconductor-related
industries. We may engage in litigation to:

     -    enforce our patents;

     -    protect our trade secrets or know-how;

     -    defend ourselves against claims we infringe on the rights of others;
          or

     -    determine the scope and validity of the patents or intellectual
          property rights of others.

Any litigation could result in substantial cost to us and divert the attention
of our management, which could harm our operating results.

         Our Operations Could Infringe on the Intellectual Property Rights of
Others. Particular aspects of our technology could be found to infringe on the
intellectual property rights or patents of others. Other companies may hold or
obtain patents on inventions or may otherwise claim proprietary rights to
technology necessary to our business. We cannot predict the extent to which we
may be required to seek licenses or alter our products so that they no longer
infringe on the rights of others. We cannot guarantee that the terms of any
licenses we may be required to seek will be reasonable. Similarly, changing our
products or processes to avoid infringing on the rights of others may be costly
or impractical or could detract from the value of our products.

         Our Business May Be Harmed by Infringement Claims of General Signal or
Applied Materials. We received notice from General Signal Corporation alleging
infringements of its patent rights by certain of our products. The notification
advised us that General Signal was attempting to enforce its rights to those
patents in litigation against Applied Materials, and that, at the conclusion of
that litigation, General Signal intended to enforce its rights against us and
others. According to a press release issued by Applied Materials in November
1997, Applied Materials settled its litigation with General Signal by acquiring
ownership of five General Signal patents. Although not verified by us, these
five patents would appear to be the patents referred to by General Signal in its
prior notice to us. Applied Materials has not contacted us regarding these
patents.

         We Do Not Have Long-term Contracts With Our Customers and Our Customers
May Cease Purchasing Our Products at Any Time. We generally do not have
long-term contracts with our customers. As a result, our agreements with our
customers do not provide any assurance of future sales. Accordingly:

     -    our customers can cease purchasing our products at any time without
          penalty;

     -    our customers are free to purchase products from our competitors;

     -    we are exposed to competitive price pressure on each order; and

     -    our customers are not required to make minimum purchases.


                                       21
<PAGE>   22

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued

         Our Future Growth Relies in Part on the Commercial Adoption of 300mm
Wafer Technology, Which is Progressing More Slowly Than Expected, and
Competition for 300mm Orders May Be Intense. Our future growth relies in part on
the adoption of new systems and technologies to automate the processing of 300mm
wafers. However, the industry transition from the current, widely used 200mm
manufacturing technology to 300mm manufacturing technology is occurring more
slowly than expected. Any significant delay in the adoption of 300mm
manufacturing technology, or the failure of the industry to adopt 300mm
manufacturing technology, could significantly reduce our opportunities for
future growth. Moreover, continued delay in the transition to 300mm technology
could permit our competitors to introduce competing or superior 300mm products.
Competition, including price competition, for such 300mm orders could be
vigorous and could harm our results of operations.


         Year 2000 Readiness; Year 2000 Problems Could Disrupt Our Business.
Problems associated with the year 2000 may not become apparent until some time
after January 2000. We believe that our products and business will not be
substantially affected by the year 2000 problem and that we have no significant
exposure to liabilities related to the year 2000 problem for the products that
we have sold. Although we believe our planning efforts are adequate to address
our year 2000 concerns, undetected year 2000 problems may cause us to experience
negative consequences or significant costs. We cannot be sure that our
suppliers, customers or businesses that we may acquire will not experience
similar consequences or costs. Such consequences or costs could adversely affect
our business.

                          RISKS RELATING TO OUR GROWTH

         Rapid Growth is Straining Our Operations and Requiring Us to Incur
Costs to Upgrade Our Infrastructure. During the last year, we have experienced
extremely rapid growth in our operations, the number of our employees, our
product offerings and the geographic area of our operations. Our growth places a
significant strain on our management, operations and financial systems. Our
future operating results will be dependent in part on our ability to continue to
implement and improve our operating and financial controls and management
information systems. If we fail to manage our growth effectively, our financial
condition, results of operations and business could be materially adversely
affected.

         Our Operating Results Would Be Harmed If One of Our Key Suppliers Fails
to Deliver Components for Our Products. We currently procure many of our
components on an as needed, purchase order basis. We do not carry significant
inventories or have any long-term supply contracts with our vendors. With the
recent increased demand for semiconductor manufacturing equipment, our suppliers
are facing significant challenges in providing components on a timely basis. Our
inability to obtain components in required quantities or of acceptable quality
could result in significant delays or reductions in product shipments. This
would materially and adversely affect our operating results.

      Our Business Could Be Harmed If We Fail to Adequately Integrate the
Operations of Our Acquisitions. Our management must devote substantial time and
resources to the integration of the operations of our acquired businesses with
our business and with each other. If we fail to accomplish this integration
efficiently, we may not realize the anticipated benefits of our acquisitions.
The process of integrating supply and distribution channels, research and
development initiatives, computer and accounting systems and other aspects of
the operation of our acquired businesses, presents a significant challenge to
our management. This is compounded by the challenge of simultaneously managing a
larger entity. We have completed a number of acquisitions in a short period of
time.
These businesses have operations and personnel located in Asia, Europe and the
United States and present a number of additional difficulties of integration,
including:

     -    difficulties in the assimilation of products and designs into
          integrated solutions;

     -    difficulties in informing customers, suppliers and distributors of the
          effects of the acquisitions and integrating them into our overall
          operations;

     -    difficulties integrating personnel with disparate business backgrounds
          and cultures;

     -    difficulties in defining and executing a comprehensive product
          strategy;

     -    difficulties in managing geographically remote units;

     -    difficulties associated with managing the risks of entering markets or
          types of businesses in which we have limited or no direct experience;
          and

     -    difficulties in minimizing the loss of key employees of the acquired
          businesses.


                                       22
<PAGE>   23

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued


If we delay integrating or fail to integrate an acquired business or experience
other unforeseen difficulties, the integration process may require a
disproportionate amount of our management's attention and financial and other
resources. Our failure to adequately address these difficulties could harm our
business and financial results.

      Our Business May Be Harmed by Acquisitions We Complete in the Future. We
plan to continue to pursue additional acquisitions of related businesses. Our
identification of suitable acquisition candidates involves risks inherent in
assessing the values, strengths, weaknesses, risks and profitability of
acquisition candidates, including the effects of the possible acquisition on our
business, diversion of our management's attention and risks associated with
unanticipated problems or latent liabilities. If we are successful in pursuing
future acquisitions, we will be required to expend significant funds, incur
additional debt or issue additional securities, which may negatively affect our
results of operations and be dilutive to our stockholders. If we spend
significant funds or incur additional debt, our ability to obtain financing for
working capital or other purposes could decline and we may be more vulnerable to
economic downturns and competitive pressures. We cannot guarantee that we will
be able to finance additional acquisitions or that we will realize any
anticipated benefits from acquisitions that we complete. Should we successfully
acquire another business, the process of integrating acquired operations into
our existing operations may result in unforeseen operating difficulties and may
require significant financial resources that would otherwise be available for
the ongoing development or expansion of our existing business.

      We May Not Be Able to Recruit and Retain Necessary Personnel Because of
Intense Competition for Highly Skilled Personnel. We need to hire and retain
substantial numbers of employees with technical backgrounds for both our
hardware and software engineering and support staffs. The market for these
employees is intensely competitive, and we have occasionally experienced delays
in hiring these personnel. Due to the cyclical nature of the demand for our
products, we have had to reduce our workforce and then rebuild our workforce as
our business has gone through downturns followed by upturns. We currently need
to hire a number of highly skilled employees, especially in manufacturing, to
meet customer demand. Due to the competitive nature of the labor markets in
which we operate, this type of employment cycle increases our risk of not being
able to retain and recruit key personnel. Our inability to recruit, retain and
train adequate numbers of qualified personnel on a timely basis could adversely
affect our ability to develop, manufacture, install and support our products.

                       RISKS RELATING TO OUR COMMON STOCK

         Our Operating Results Fluctuate Significantly, Which Could Negatively
Impact Our Business and Our Stock Price. Our margins, revenues and other
operating results can fluctuate significantly from quarter to quarter depending
upon a variety of factors, including:

     -    the level of demand for semiconductors in general;

     -    cycles in the market for semiconductor manufacturing equipment and
          automation software;

     -    the timing and size of orders from our customer base;

     -    our ability to manufacture, test and deliver products in a timely and
          cost-effective manner;

     -    our success in winning competitions for orders;

     -    the timing of our new product announcements and releases and those of
          our competitors;

     -    the mix of products sold by us;

     -    competitive pricing pressures; and

     -    the level of automation required in fab extensions, upgrades and new
          facilities.

We entered into the factory automation software business in fiscal 1999. We
believe a substantial portion of our revenues from this business will be
dependent on achieving project milestones. As a result, our revenue from this
business will be subject to fluctuations depending upon a number of factors,
including whether we can achieve project milestones on a timely basis, if at
all, as well as the timing and size of projects.


                                       23
<PAGE>   24

                             BROOKS AUTOMATION, INC.
           MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION
                      AND RESULTS OF OPERATIONS - Continued


         The Volatility of Our Stock Price Could Adversely Affect an Investment
in Our Stock. The market price of our common stock has fluctuated widely. For
example, between April 14, 2000 and April 28, 2000, the price of our common
stock rose from approximately $62.38 to $89.69 per share. Between April 28, 2000
and May 31, 2000, the price of our common stock dropped from approximately
$89.69 to $39.75 per share. Consequently, the current market price of our common
stock may not be indicative of future market prices, and we may not be able to
sustain or increase the value of an investment in our common stock. Factors
affecting our stock price may include:

     -    variations in operating results from quarter to quarter;

     -    changes in earnings estimates by analysts or our failure to meet
          analysts' expectations;

     -    changes in the market price per share of our public company customers;

     -    market conditions in the industry;

     -    general economic conditions;

     -    low trading volume of our common stock; and

     -    the number of firms making a market in our common stock.

In addition, the stock market has recently experienced extreme price and volume
fluctuations. These fluctuations have particularly affected the market prices of
the securities of high technology companies like us. These market fluctuations
could adversely affect the market price of our common stock.

         Provisions of Our Certificate of Incorporation, Bylaws and Contracts
May Discourage Takeover Offers and May Limit the Price Investors Would Be
Willing to Pay for Our Common Stock. Our certificate of incorporation and bylaws
contain provisions that may make an acquisition of us more difficult and
discourage changes in our management. These provisions could limit the price
that certain investors might be willing to pay in the future for shares of our
common stock. In addition, we have adopted a rights plan. In many potential
takeover situations, rights issued under the plan become exercisable to purchase
our common stock at a price substantially discounted from the then applicable
market price of our common stock. Because of its possible dilutive effect to a
potential acquirer, the rights plan would generally discourage third parties
from proposing a merger with or initiating a tender offer for us that is not
approved by our board of directors. Accordingly, the rights plan could have an
adverse impact on our stockholders who might want to vote in favor of the merger
or participate in the tender offer. In addition, shares of our preferred stock
may be issued upon terms the board of directors deems appropriate without
stockholder approval. Our ability to issue preferred stock in such a manner
could enable our board of directors to prevent changes in our management or
control.


                                       24
<PAGE>   25

                             BROOKS AUTOMATION, INC.


Item 3.  QUANTITATIVE AND QUALITATIVE DISCLOSURE ABOUT MARKET RISK


INTEREST RATE EXPOSURE

Based on Brooks' overall interest exposure at June 30, 2000, including all
interest rate-sensitive instruments, a near-term change in interest rates within
a 95% confidence level based on historical interest rate movements would not
materially affect the consolidated results of operations or financial position.


CURRENCY RATE EXPOSURE

Brooks' foreign revenues are generally denominated in United States dollars.
Accordingly, foreign currency fluctuations have not had a significant impact on
the comparison of the results of operations for the periods presented. The costs
and expenses of Brooks' international subsidiaries are generally denominated in
currencies other than the United States dollar. However, since the functional
currency of Brooks' international subsidiaries is the local currency, foreign
currency translation adjustments do not impact operating results, but instead
are reflected as a component of stockholders' equity under the caption
"Accumulated other comprehensive income (loss)". To the extent Brooks expands
its international operations or changes its pricing practices to denominate
prices in foreign currencies, Brooks will be exposed to increased risk of
currency fluctuation.

STOCK PRICE

The stock prices of semiconductor equipment companies are subject to significant
fluctuations. Brooks' stock price may be affected by a variety of factors that
could cause the price of Brooks' common stock to fluctuate, perhaps
substantially, including: announcements of developments related to Brooks'
business; quarterly fluctuations of Brooks' actual or anticipated operating
results and order levels; general conditions in the semiconductor and flat panel
display industries or the worldwide economy; announcements of technological
innovations; new products or product enhancements by Brooks or its competitors;
developments in patents or other intellectual property rights and litigation;
and developments in Brooks' relationships with its customers and suppliers. In
addition, in recent years, both the stock market in general and the market for
shares of small capitalization and semiconductor industry-related companies in
particular have experienced extreme price fluctuations which have often been
unrelated to the operating performance of affected companies. Any such
fluctuations in the future could adversely affect the market price of Brooks'
common stock. There can be no assurance that the market price of the common
stock of Brooks will not decline.


                                       25
<PAGE>   26

Item 6.  EXHIBITS AND REPORTS ON FORM 8-K

     (a)  The following exhibits are included herein:

          EXHIBIT NO.     DESCRIPTION
          -----------     -----------

             2.1          Interests for Stock Purchase Agreement dated as of May
                          5, 2000 among the Registrant, Irvine Optical and
                          Irvine's unit members, as amended (incorporated by
                          reference to Exhibit 2.02 of the Registrant's
                          Registration Statement on Form S-3 (No. 333-42620)).

            27.1          Financial Data Schedule for the quarterly period ended
                          June 30, 2000

            27.2          Financial Data Schedule for the quarterly period ended
                          June 30, 1999, restated to reflect the acquisitions of
                          Irvine Optical Company LLC and Smart Machines Inc. in
                          pooling of interests transactions effective May 5,
                          2000 and August 31, 1999, respectively.

     (b)  The following reports on Form 8-K were filed during the quarterly
          period ended June 30, 2000:

          (1)  Current report on Form 8-K filed on May 19, 2000, relating to the
               acquisition of Irvine Optical LLC from Ronald A. McIntyre,
               Christopher G. McIntyre and The Peninsula Fund Limited
               Partnership.


                                       26
<PAGE>   27

                                   SIGNATURES


Pursuant to the requirements of the Securities Exchange Act of 1934, the
Registrant has duly caused this report to be signed on its behalf by the
undersigned, thereunto duly authorized.



                                            BROOKS AUTOMATION, INC.



DATE: August 10, 2000                       /s/ Robert J. Therrien
                                            ----------------------
                                            Robert J. Therrien
                                            Director and President
                                            (Principal Executive Officer)



DATE: August 10, 2000                       /s/ Ellen B. Richstone
                                            ----------------------
                                            Ellen B. Richstone
                                            Senior Vice President of Finance and
                                            Administration and Chief Financial
                                            Officer(Principal Financial Officer)


                                       27
<PAGE>   28

                                  EXHIBIT INDEX


     EXHIBIT NO.      DESCRIPTION
     -----------      -----------

        2.1           Interests for Stock Purchase Agreement dated as of May
                      5, 2000 among the Registrant, Irvine Optical and
                      Irvine's unit members, as amended (incorporated by
                      reference to Exhibit 2.02 of the Registrant's
                      Registration Statement on Form S-3 (No. 333-42620)).

       27.1           Financial Data Schedule for the quarterly period ended
                      June 30, 2000

       27.2           Financial Data Schedule for the quarterly period ended
                      June 30, 1999, restated to reflect the acquisitions of
                      Irvine Optical Company LLC and Smart Machines Inc. in
                      pooling of interests transactions effective May 5, 2000
                      and August 31, 1999, respectively.


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