BROOKS AUTOMATION INC
10-Q, 1999-05-17
SPECIAL INDUSTRY MACHINERY, NEC
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<PAGE>
 
                                 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: March 31, 1999

                                      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) 262-2566

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

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 
                                  ---     ---       

     As of May 6, 1999, there were outstanding 11,059,047 shares of the
     Company's Common Stock, $0.01 par value.

     This report, including all exhibits and attachments, contains 20 pages.
<PAGE>
 
                            BROOKS AUTOMATION, INC.

                                     INDEX
                                        
 
                                                                          Page
PART I.   FINANCIAL INFORMATION                                        Number(s)
- -------   ---------------------                                        ---------

Item 1    Financial Statements:
 
          Condensed Consolidated Balance Sheets at March 31, 1999
           and September 30, 1998                                          3
 
          Condensed Consolidated Statements of Operations for the 
           six months and three months ended March 31, 1999 and 1998       4
 
          Condensed Consolidated Statements of Cash Flows for the 
           six months ended March 31, 1999 and 1998                        5
 
          Notes to Condensed Consolidated Financial Statements             6-8
 
Item 2    Management's Discussion and Analysis of Financial Condition 
           and Results of Operations                                       9-13

Item 3    Quantitative and Qualitative Disclosures about Market Risk       14
 
Risk Factors                                                               15-18
 
PART II.  OTHER INFORMATION
- --------  -----------------

Item 4    Submission of Matters to a Vote of Security Holders              19
 
Item 6    Exhibits and Reports on Form 8-K                                 19
 
Signatures                                                                 20
 

                                  Page 2 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.
                     CONDENSED CONSOLIDATED BALANCE SHEETS
 
 
<TABLE> 
<CAPTION> 
 
(In thousands, except share data)                                                    March 31,           September 30,
                                                                                        1999                 1998
                                                                                        ----                 ----
                                                                                    (unaudited)
<S>                                                                                 <C>                 <C>
Assets                                                                              
Current assets:
   Cash and cash equivalents                                                         $  69,277            $  68,161
   Accounts receivable, net of allowances for doubtful accounts of
     $1,981 and $1,898, respectively, and including related party
     receivables of $2,940 and $2,365, respectively                                     23,123               20,701
   Inventories                                                                          16,839               19,589
   Prepaid expenses and other current assets                                             9,075                9,641
                                                                                     ---------            --------- 
     Total current assets                                                              118,314              118,092
 
Fixed assets, net                                                                       17,488               18,606
Other assets                                                                             4,370                4,254
                                                                                     ---------            --------- 
     Total assets                                                                    $ 140,172            $ 140,952
                                                                                     =========            =========
 
Liabilities and Stockholders' Equity
Current liabilities:
   Accounts payable                                                                  $   5,473            $   5,505
   Accrued expenses and other current liabilities                                       12,099               12,666
                                                                                     ---------            --------- 
     Total current liabilities                                                          17,572               18,171
 
Other long-term liabilities                                                                759                1,018
                                                                                     ---------            --------- 
     Total liabilities                                                                  18,331               19,189
                                                                                     ---------            --------- 
 
Stockholders' equity:
   Preferred stock, $0.01 par value; 1,000,000 shares authorized;
     none issued and outstanding                                                             -                    -
   Common stock, $0.01 par value; 21,500,000 shares authorized;
     11,057,058 and 11,007,281 shares issued and outstanding, respectively                 111                  110
   Additional paid-in capital                                                          129,237              128,839
   Cumulative translation adjustment                                                      (431)                (536)
   Deferred compensation                                                                  (104)                (119)
   Accumulated deficit                                                                  (6,972)              (6,531)
                                                                                     ---------            --------- 
     Total stockholders' equity                                                        121,841              121,763
                                                                                     ---------            --------- 
     Total liabilities and stockholders' equity                                      $ 140,172            $ 140,952
                                                                                     =========            =========
</TABLE>
 
 
The accompanying notes are an integral part of these condensed consolidated
financial statements.

                                  Page 3 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.
                CONDENSED CONSOLIDATED STATEMENTS OF OPERATIONS
                                  (unaudited)



<TABLE>
<CAPTION>
(In thousands, except share related data)                         Six months ended March 31,     Three months ended March 31,
                                                                    1999             1998            1999            1998
                                                                    ----             ----            ----            ----
<S>                                                               <C>              <C>           <C>               <C>  
Revenues:                                                                                          
  Product                                                         $ 33,635         $ 43,779        $ 18,480        $ 18,746
  Services                                                           9,450            9,944           4,796           5,329
                                                                  --------         --------        --------        --------
                  Total revenues                                    43,085           53,723          23,276          24,075
                                                                  --------         --------        --------        --------
                                                                                                   
Cost of revenues:                                                                                  
  Product                                                           18,024           30,714           9,456          16,235
  Services                                                           5,953            7,635           3,453           4,105
                                                                  --------         --------        --------        --------
                  Total cost of revenues                            23,977           38,349          12,909          20,340
                                                                  --------         --------        --------        --------
                                                                                                   
Gross profit                                                        19,108           15,374          10,367           3,735
                                                                  --------         --------        --------        --------
                                                                                                   
Operating expenses:                                                                                
  Research and development                                           8,797           12,944           4,705           6,200
  Selling, general and administrative                               11,920           14,501           6,193           7,426
                                                                  --------         --------        --------        --------
                  Total operating expenses                          20,717           27,445          10,898          13,626
                                                                  --------         --------        --------        --------
                                                                                                   
Loss from operations                                                (1,609)         (12,071)           (531)         (9,891)
Interest income, net                                                 1,473            1,508             749             818
                                                                  --------         --------        --------        --------
                                                                                                   
Income (loss) before income taxes                                     (136)         (10,563)            218          (9,073)
Income tax provision (benefit)                                         305           (1,287)             83          (2,651)
                                                                  --------         --------        --------        --------
                                                                                                   
Net income (loss)                                                     (441)          (9,276)            135          (6,422)
Dividends on preferred stock                                             -              261               -             130
                                                                  --------         --------        --------        --------
                                                                                                   
Net income (loss) attributable to common stockholders             $   (441)        $ (9,537)       $    135        $ (6,552)
                                                                  ========         ========        ========        ========
                                                                                                   
Income (loss) per share:                                                                           
  Basic                                                           $  (0.04)        $  (0.93)       $   0.01        $  (0.64)
  Diluted                                                         $  (0.04)        $  (0.93)       $   0.01        $  (0.64)
                                                                                                   
Shares used in computing income (loss) per share:                                                  
  Basic                                                             11,028           10,235          11,045          10,275
  Diluted                                                           11,028           10,235          11,793          10,275

</TABLE>



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

                                  Page 4 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.
                CONDENSED CONSOLIDATED STATEMENTS OF CASH FLOWS
                                  (unaudited)

<TABLE>
<CAPTION>
 
                                                                                                 Six months ended March 31,
(In thousands)                                                                                   1999                 1998
                                                                                                 ----                 ----
<S>                                                                                           <C>                   <C> 

Cash flows from operating activities
Net loss                                                                                      $   (441)             $ (9,276)
   Adjustments to reconcile net loss to net cash
    provided by operating activities:
     Depreciation and amortization                                                               3,369                 3,802
     Compensation expense related to common stock options                                           15                    73
     Deferred income taxes                                                                        (277)               (1,370)
     Changes in operating assets and liabilities:
       Accounts receivable                                                                      (2,402)                9,281
       Inventories                                                                               2,765                (3,602)
       Prepaid expenses and other current assets                                                   566                  (619) 
       Accounts payable                                                                            (38)                  709
       Accrued expenses and other current liabilities                                             (477)                 (700)
                                                                                              --------              -------- 
         Net cash provided by (used in) operating activities                                     3,080                (1,702)
                                                                                              --------              -------- 
 
Cash flows from investing activities
Purchases of fixed assets, net                                                                  (2,085)               (3,631)
Increase in other assets                                                                          (194)                 (373)
                                                                                              --------              -------- 
         Net cash used in investing activities                                                  (2,279)               (4,004)
                                                                                              --------              -------- 

Cash flows from financing activities
Payments on capital leases                                                                        (200)                 (417)
Proceeds from sale and leaseback of equipment                                                        -                   151
Proceeds from issuance of common stock                                                             399                   388
                                                                                              --------              -------- 
         Net cash provided by financing activities                                                 199                   122
                                                                                              --------              --------  
Elimination of net cash activities of FASTech for the
 three months ended December 31, 1997                                                                -                (1,761)
                                                                                              --------              --------   

Effects of exchange rate changes on cash and cash equivalents                                      116                    93
                                                                                              --------              --------      
                                                    
Net increase (decrease) in cash and cash equivalents                                             1,116                (7,252) 
 
Cash and cash equivalents, beginning of period                                                  68,161                75,253
                                                                                              --------              --------      
Cash and cash equivalents, end of period                                                      $ 69,277              $ 68,001
                                                                                              ========              ========
</TABLE>
                                                                                
  The accompanying notes are an integral part of these condensed consolidated
                             financial statements.

                                  Page 5 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

             NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS
                                  (unaudited)


1. Basis of  Presentation
   ----------------------

   The accompanying unaudited condensed consolidated financial statements of
   Brooks Automation, Inc. and its subsidiaries (the "Company") have been
   prepared in accordance with generally accepted accounting principles and the
   instructions to Article 10 of Securities and Exchange Commission Regulation
   S-X.  Accordingly, they do not include all of the information and footnotes
   required by generally accepted accounting principles for complete financial
   statements. In the opinion of management, all adjustments, consisting of
   normal recurring adjustments, considered necessary for a fair presentation
   have been included.  The financial statements for the six and three months
   ended March 31, 1998, have been restated to reflect the fiscal 1998
   acquisition of FASTech Integration, Inc., which was accounted for under the
   pooling of interests method.  Certain prior year balances have been
   reclassified to conform to the current year presentation.  For further
   information, refer to the audited consolidated financial statements of the
   Company that are included in the Company's Annual Report on Form 10-K for the
   year ended September 30, 1998.

   The results of operations for the six months and three months ended March 31,
   1999, are not necessarily indicative of the results that may be expected for
   other quarters or the entire fiscal year.
 
2. Inventories
   -----------

   Inventories consist of the following (in thousands):

                                               March 31,    September 30,
                                                 1999           1998
                                            -------------   -------------   
 
   Raw materials and purchased parts            $ 5,377        $ 8,815
   Work-in-process                                8,666          7,878
   Finished goods                                 2,796          2,896
                                            -------------   -------------   
                                                $16,839        $19,589
                                            =============   =============

3. Income (Loss) Per Share
   -----------------------

   The following is a summary of the shares used in computing basic and diluted
   income (loss) per share (in thousands):

<TABLE> 
<CAPTION> 
                                                                      Six months ended                Three months ended 
                                                                          March 31,                         March 31,
                                                                    1999             1998             1999             1998
                                                                   ------           ------           ------           ------
<S>                                                                <C>              <C>              <C>              <C>
   Weighted average shares outstanding used in computing
    basic income (loss) per share                                  11,028           10,235           11,045           10,275
   Dilutive securities                                                  -                -              748                -
                                                                   ------           ------           ------           ------
   Shares used in computing diluted income (loss) per share        11,028           10,235           11,793           10,275
                                                                   ======           ======           ======           ======
</TABLE>

4. Comprehensive Income (Loss)
   ---------------------------

   The Company adopted Statement of Financial Accounting Standards ("SFAS") No.
   130, "Reporting Comprehensive Income" in the first quarter of fiscal 1999.
   SFAS No. 130 establishes new rules for the reporting and display of
   comprehensive income and its components.  The adoption of SFAS No. 130 had no
   impact on the Company's net income (loss) or stockholders' equity. Total
   comprehensive income (loss), which was comprised of net income (loss) and
   foreign currency translation adjustments, was as follows (in thousands):

                                  Page 6 of 20
<PAGE>
 
<TABLE>
<CAPTION>
                                                                  Six months ended March 31,       Three months ended March 31,
                                                                     1999             1998             1999             1998
                                                                   --------         --------         --------         --------
<S>                                                               <C>              <C>             <C>               <C>
   Net income (loss)                                               $   (441)        $ (9,276)        $    135         $ (6,422)
   Foreign currency translation adjustments                             105             (211)              30              504
                                                                   --------         --------         --------         --------
   Total comprehensive income (loss)                               $   (336)        $ (9,487)        $    165         $ (5,918)
                                                                   ========         ========         ========         ========
</TABLE>

5. Recent Accounting Pronouncements
   --------------------------------

   In June 1997, the Financial Accounting Standards Board ("FASB") issued SFAS
   No. 131, "Disclosures about Segments of an Enterprise and Related
   Information," which establishes standards for reporting information on
   operating segments in interim and annual financial statements.   The
   statement is effective for the Company for fiscal 1999, however, there are no
   interim disclosure requirements in the year of adoption.  Adoption of this
   statement will not have an impact on the Company's results of operations or
   financial position.

   In June 1998, the FASB issued SFAS No. 133, "Accounting for Derivative
   Instruments and Hedging Activities."  This statement is effective for all
   fiscal quarters of all fiscal years beginning after June 15, 1999 (fiscal
   2000 for the Company) and requires that all derivative instruments be
   recorded on the balance sheet at their fair value.  Changes in the fair value
   of derivatives are recorded each period in current earnings or other
   comprehensive income, depending on whether a derivative is designated as part
   of a hedge transaction and, if it is, the type of hedge transaction.
   Management anticipates that the adoption of SFAS No. 133 will not have a
   material impact on the Company's results of operations or financial position.

6. Significant Customers and Related Party Information
   ----------------------------------------------------

   For the six months ended March 31, 1999 and 1998, the Company had revenues
   from a related party representing 10% and 19% of revenues, respectively.  For
   the three months ended March 31, 1999 and 1998, the Company had revenues from
   a related party representing 15% and 29% of revenues, respectively. At March
   31, 1999 and September 30, 1998, accounts receivable from a related party
   accounted for 13% and 11% of total accounts receivable, respectively.

   For the six months ended March 31, 1999 and 1998, the Company had revenues
   from a customer (not the same customer in each period and not a related
   party) representing 13% and 10% of revenues, respectively. For the three
   months ended March 31, 1999, the Company had revenues from a customer (not a
   related party) representing 10% of revenues. For the three months ended March
   31, 1998, the Company had revenues from two customers (not related parties)
   which each represented 12% of revenues. At March 31, 1999, there were no non-
   related parties representing more than 10% of accounts receivable. At
   September 30, 1998, accounts receivable from one customer (not a related
   party) represented 14% of total accounts receivable.

7. Contingency
   -----------

   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 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. There can be no assurance, however, that a license will be
   available on reasonable terms or at all. The Company could decide, in the
   alternative to resort to litigation to challenge such claims or to design
   around the patented technology. Currently, the Company does not believe that
   it is probable that future events related to this threatened matter will have
   a material adverse effect on the Company's business.

8. Subsequent Events
   -----------------

   In April 1999 the Company acquired Hanyon Technology, Inc. ("Hanyon") for
   $6.6 million in cash subject to certain post closing adjustments. The Company
   will use the purchase accounting method to account for the acquisition.
   Hanyon, based in Korea, provides Manufacturing Executing Systems (MES) and
   automation software and systems integration services to the semiconductor and
   LCD industries in Korea and Taiwan.

                                  Page 7 of 20
<PAGE>
 
   In April 1999 the Company announced an agreement to form a joint venture in
   Korea with Samsung Electronics. The Company's initial cash investment in this
   joint venture will be $3.5 million. This joint venture will be 70% owned by
   the Company and 30% owned by Samsung, and is being organized to design,
   develop, and manufacture atmospheric flat panel display loaders along with
   other products.


                                  Page 8 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

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

   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 the Company to
   be materially different from any future results, performance, or achievements
   expressed or implied by such forward-looking statements.  Such factors
   include the factors that may affect future results set forth in Management's
   Discussion and Analysis of Financial Condition and Results of Operations,
   which is included in this report.  Precautionary statements made herein
   should be read as being applicable to all related forward-looking statements
   wherever they appear in this report.

   OVERVIEW

   Brooks Automation, Inc. (the "Company") is in the semiconductor wafer
   handling business.  In 1992 the Company introduced the family of vacuum
   central wafer handling systems and modules that forms the foundation of the
   Company's current business.  In 1994 the Company introduced a similar family
   of systems and modules for flat panel display substrates, including a next-
   generation magnetically driven vacuum transfer robot.  In 1996 the Company
   acquired Techware Systems Corporation, a designer and supplier of integrated
   equipment control software for the semiconductor and related industries,
   expanding its software and control capability.  In 1997 the Company
   introduced a line of products for the atmospheric handling market, including
   in-line and controlled environment systems, robots, aligners and traversers.
   In 1998 the Company acquired FASTech Integration, Inc. ("FASTech"), a
   designer and supplier of top-to-bottom integrated Manufacturing Execution
   System (MES) software solutions.

   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.  The Company's product revenues include sales of
   hardware and software products; the Company's service revenues include
   revenue from maintenance contracts and application consulting contracts.

   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 do not impact operating results, but instead are
   reflected as a component of stockholders' equity.  To the extent 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.

   The Company's stock is currently quoted on the Nasdaq National Market under
   the symbol "BRKS."

                                  Page 9 of 20
<PAGE>
 
   RESULTS OF OPERATIONS

   The following table sets forth certain financial data for the periods
   indicated as a percentage of total revenues:
 
<TABLE>
<CAPTION>
                                                                    Six months ended                      Three months ended
                                                                       March 31,                               March 31,
                                                                1999                1998                1999                 1998
                                                                ----                ----                ----                 ----
<S>                                                    <C>                 <C>                 <C>                 <C>
   Revenues:
      Product                                                   78.1%               81.5%               79.4%                 77.9%
      Services                                                  21.9%               18.5%               20.6%                 22.1%
                                                               ------              ------              ------                ------ 

         Total revenues                                        100.0%              100.0%              100.0%                100.0%
                                                               ------              ------              ------                ------ 

 
   Gross profit:
      Product                                                   46.4%               29.8%               48.8%                 13.4%
      Services                                                  37.0%               23.2%               28.0%                 23.0%
                                                               ------              ------              ------                ------ 

         Total gross profit                                     44.3%               28.6%               44.5%                 15.5%
                                                               ------              ------              ------                ------ 

 
   Operating expenses:
      Research and development                                  20.4%               24.1%               20.2%                 25.8%
      Selling, general and administrative                       27.6%               27.0%               26.6%                 30.8%
                                                               ------              ------              ------                ------ 

 
   Loss from operations                                         (3.7%)             (22.5%)              (2.3%)               (41.1%)

   Interest income, net                                          3.4%                2.8%                3.2%                  3.4%
                                                               ------              ------              ------                ------ 

 
   Income (loss) before income taxes                            (0.3%)             (19.7%)               0.9%                (37.7%)
                                                               ======              ======              ======                ====== 

</TABLE>


   SIX AND THREE MONTHS ENDED MARCH 31, 1999, COMPARED WITH SIX AND THREE MONTHS
   ENDED MARCH 31, 1998:

   Revenues

   For the six months ended March 31, 1999, total revenues decreased 19.8% to
   $43.1 million compared to $53.7 million for the six months ended March 31,
   1998. Product revenues decreased by 23.2% to $33.6 million and service
   revenues decreased 5.0% to $9.5 million. For the three months ended March 31,
   1999, total revenues decreased 3.3% to $23.3 million compared with revenues
   of $24.1 million in the comparable quarter of the prior fiscal year.  Product
   revenues decreased 1.4% to $18.5 million and service revenues decreased 10%
   to $4.8 million.  The decrease in product revenues for the three and six
   months was primarily the result of the prolonged economic downturn currently
   impacting the semiconductor industry and related fabrication equipment
   sector. For the six months ended March 31, 1999, international sales
   represented 46% of total revenue compared to 33% for the comparable six
   months of the prior fiscal year. For the three months ended March 31, 1999,
   international sales represented 34% of total revenue compared to 30% for the
   comparable quarter last year.  The Company expects that foreign revenues will
   continue to account for a significant portion of total revenues in fiscal
   1999.  However, there can be no assurance that foreign revenues, particularly
   from Asia, which is suffering regional economic downturns, will remain a
   strong component of the Company's total revenues.

                                 Page 10 of 20
<PAGE>
 
   Gross Profit

   Overall, the gross profit percentage increased to 44.3% for the six months
   ended March 31, 1999, compared to 28.6% (36.4% excluding an inventory charge
   of $4.2 million to provide additional reserves for slow-moving and obsolete
   inventories) in the comparable six months of the prior fiscal year. The gross
   profit percentage for product revenue was 46.4%, an increase compared to
   29.8% (39.4% excluding the inventory charge) in the comparable six months of
   the prior fiscal year. For the three months ended March 31, 1999, the gross
   profit percentage increased to 44.5%, compared to 15.5% (33.0% excluding the
   inventory charge) in the comparable quarter of the prior fiscal year. The
   gross profit percentage for product revenues was 48.8%, an increase from
   13.4% (35.8% excluding the inventory charge) in the comparable quarter of the
   prior fiscal year. The increase is primarily a result of lower material costs
   for hardware products and an increased percentage of higher margin software
   revenues.

   For the six months ended March 31, 1999, the gross profit percentage of
   service revenues increased to 37.0% from 23.2% in the comparable six months
   of the prior fiscal year. For the three months ended March 31, 1999, the
   gross profit percentage of service revenues increased to 28.0% as compared
   with 23.0% in the comparable quarter of the prior fiscal year. These
   improvements are primarily a result of personnel and personnel-related cost
   reductions. Included in the cost of services revenues are global support
   costs, which consist primarily of personnel costs and travel expenses.

   Research and Development

   Research and development expenses decreased 32.0% to $8.8 million (20.4% of
   revenues) for the six months ended March 31, 1999, from $12.9 million (24.1%
   of revenues) in the comparable six months of the prior fiscal year. For the
   three months ended March 31, 1999, research and development expenses
   decreased 24.1% to $4.7 million (20.2% of revenues) from $6.2 million (25.8%
   of revenues) in the comparable quarter of the prior fiscal year.  The
   decrease in research and development expenses is due primarily to lower
   personnel and personnel-related costs following a reduction in headcount in
   the second and fourth quarters of fiscal 1998.

   Selling, General and Administrative

   Selling, general and administrative expenses decreased 17.8% to $11.9 million
   (27.6% of revenues) for the six months ended March 31, 1999, from $14.5
   million (27.0% of revenues) in the comparable six months of the prior fiscal
   year. Selling, general and administrative expenses decreased 16.6% to $6.2
   million (26.6% of revenues) for the three months ended March 31, 1999, from
   $7.4 million (30.8% of revenues) in the comparable quarter of the prior
   fiscal year. The decrease in selling, general and administrative expenses is
   due primarily to lower personnel and personnel-related costs following a
   reduction in headcount in the second and fourth quarters of fiscal 1998 and
   expense control programs initiated during the third and fourth quarters of
   fiscal 1998.
 
   Interest Income, Net

   Interest income, net was relatively consistent for the six months ended March
   31, 1999 and 1998. Interest income, net for the three months ended March 31,
   1999, decreased to $749,000 from $818,000 in the comparable quarter of the
   prior fiscal year.  The decrease in interest income, net is due primarily to
   lower interest rates earned on invested funds in the current period. The 
   comparable 1998 period includes interest expense of $71,000 for deferred
   financing costs resulting from the repayment of a note and interest on
   subordinated notes, as well as capital leases repaid during fiscal 1998.

   Income Tax Provision

   The Company recorded tax provisions of $305,000 and $83,000, respectively,
   for the six and three-month periods ended March 31, 1999, due primarily to
   taxes on revenues and profit from foreign operations. The Company recorded
   net tax benefits of $1,287,000 and $2,651,000, respectively, during the six
   and three month periods of the prior fiscal year primarily reflecting the tax
   benefit of domestic net operating losses.


                                 Page 11 of 20
<PAGE>
   LIQUIDITY AND CAPITAL RESOURCES
 
   As of March 31, 1999, the Company's principal source of liquidity consisted
   of $69.3 million in cash and cash equivalents, compared to $68.2 million at
   September 30, 1998.  The Company had working capital of $100.7 million as of
   March 31, 1999, compared to $99.9 million at September 30, 1998.

   For the six months ended March 31, 1999, cash and cash equivalents increased
   $1.1 million primarily as a result of $3.1 million of cash generated by
   operating activities, partially offset by $2.3 million of cash used for
   investing activities. The positive operating cash flow resulted primarily
   from decreases in inventory and prepaid expenses and other current assets and
   the Company's net loss adjusted for non-cash items partially offset by a
   decrease in accrued liabilities and an increase in accounts receivable.

   The Company's investing activities consisted of capital spending aggregating
   $2.1 million during the six months ended March 31, 1999, primarily for
   business information systems including computer hardware and software, as
   well as headquarters facility improvements. The Company expects to continue
   to make capital expenditures to support its business activities.
   Additionally, the Company is considering the acquisition of companies,
   technologies or products in 1999 which are complementary to its business. In
   April 1999, the Company acquired Hanyon Technology, Inc. for $6.6 million in
   cash subject to certain post closing adjustments. Financing activities
   consisted of repayments of long-term debt and capital lease obligations more
   than offset by the proceeds from the issuance of common stock. The Company
   believes that current cash and cash equivalent balances will be adequate to
   fund planned working capital and capital expenditure requirements for at
   least the next twelve months.

   YEAR 2000 READINESS

   The year 2000 issue is the potential for system and processing failure of
   date-related data as the result of computer-controlled systems using two
   digits rather than four digits to define the applicable year.  For example,
   computer programs that have time-sensitive software may recognize a date
   using "00" as the year 1900 rather than the year 2000. This could result in
   system failure or miscalculations causing disruptions of operations,
   including, among other things, a temporary inability to process transactions,
   send invoices, or engage in similar normal business activities.

   The Company may be affected by year 2000 issues related to noncompliant
   information technology ("IT") systems or non-IT systems operated or sold by
   the Company or by third parties.  The Company has substantially completed
   assessment of its internal IT systems and non-IT systems.  At this point in
   its assessment, the Company is not currently aware of any year 2000 problems
   relating to systems operated or sold by the Company that would have a
   material adverse effect on the Company's business, results of operations, or
   financial condition without taking into account the Company's efforts to
   avoid such problems.

   Although the Company believes that its systems are year 2000 compliant, the
   Company utilizes third-party equipment and software that may not be year 2000
   compliant.  In addition, the Company's products and software are often sold
   to be integrated into or interfaced with third-party equipment or software.
   Failure of third-party equipment or software to operate properly with regard
   to the year 2000 and thereafter could require the Company to incur
   unanticipated expenses to remedy any problems, which could have a material
   adverse effect on the Company's business, results of operations and financial
   condition.  The Company may also be vulnerable to any failures by its major
   suppliers, service providers, and customers to remedy their own internal IT
   and non-IT system year 2000 issues which could, among other things, have a
   material adverse effect on the Company supplies and orders.  At this time,
   the Company is unable to estimate the nature or extent of any potential
   adverse impact resulting from the failure of third parties, such as its
   suppliers, service providers and customers, to achieve year 2000 compliance.
   Moreover, such third parties, even if year 2000 compliant, could experience
   difficulties resulting from year 2000 issues that may affect their suppliers,
   service providers and customers.  As a result, although the Company does not
   currently anticipate that it will experience any material shipment delays
   from its major product suppliers or any material sales delays from its major
   customers due to year 2000 issues, there can be no assurance that these third
   parties will not experience year 2000 problems or that any problems would not
   have an adverse material effect on the Company's business, results of
   operations and financial condition. Because the cost and timing of year 2000
   compliance by third parties such as suppliers, service providers and
   customers is not within the Company's control, the Company cannot give any
   assurance with respect to the cost or timing of such efforts or any potential
   adverse effects on the Company of any failure by these third parties to
   achieve year 2000 compliance.

   The Company is currently developing a contingency plan in the event year 2000
   problems relating to  its operations arise. The Company's failure to develop
   a contingency plan could have a material adverse effect on the Company's
   business, results of operations and financial condition.


                                 Page 12 of 20

<PAGE>
 
   To the extent that the Company does not identify any material non-compliant
   IT systems or non-IT systems operated by the Company or by third parties,
   such as the Company's suppliers, service providers and customers, the most
   reasonably likely worst case year 2000 scenario is a systematic failure
   beyond the control of the Company, such as a prolonged telecommunications or
   electrical failure, or a general disruption in United States or global
   business activities that could result in a significant economic downturn.
   The Company believes that the primary business risks, in the event of such
   failure or other disruption, would include but not be limited to, loss of
   customers or orders, increased operating costs, inability to obtain inventory
   on a timely basis, disruptions in product shipments, or other business
   interruptions of a material nature, as well as claims of mismanagement,
   misrepresentation, or breach of contract, any of which could have a material
   adverse effect on the Company's business, results of operations and financial
   condition.

                                 Page 13 of 20




<PAGE>
 
                            BROOKS AUTOMATION, INC.

              ITEM 3.   QUANTITATIVE AND QUALITATIVE DISCLOSURES
                               ABOUT MARKET RISK
                                        
   INTEREST RATE EXPOSURE

   Based on the Company's overall interest exposure at March 31, 1999, 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

   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 do not impact operating results, but instead are
   reflected as a component of stockholders' equity.  To the extent 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.

   STOCK PRICE

   The stock prices of semiconductor equipment companies are subject to
   significant fluctuations. The Company's stock price may be affected by a
   variety of factors that could cause the price of the Company's Common Stock
   to fluctuate, perhaps substantially, including: announcements of developments
   related to the Company's business; quarterly fluctuations in the Company's
   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 the Company or its competitors; developments in patents or
   other intellectual property rights and litigation; and developments in the
   Company's relationships with its customers and suppliers. In addition, in
   recent years 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 the Company's Common
   Stock. There can be no assurance that the market price of the Common Stock of
   the Company will not decline.

                                 Page 14 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

                                 RISK FACTORS

   FACTORS THAT MAY AFFECT FUTURE RESULTS

   From time to time, information provided by the Company or statements made by
   its employees may contain forward-looking information that involve
   substantial risks and uncertainties that could cause actual results to differ
   materially from targets or projected results.
 
   Quarterly Fluctuations in Operating Results and Market Price of Securities

   The Company's operating results have in the past fluctuated and may in the
   future continue to fluctuate significantly depending upon a variety of
   factors. Such factors may include: the demand for semiconductors in general;
   cyclicality in the market for semiconductor manufacturing equipment and
   software products; the timing and size of orders from the Company's customer
   base; the ability of the Company to manufacture, test and deliver products in
   a timely and cost effective manner; the ability of the Company's competitors
   to obtain orders from the Company's customers; the timing of new product
   announcements and releases by the Company and its competitors; the mix of
   products sold by the Company; and competitive pricing pressures.

   The Company has historically derived a substantial portion of its quarterly
   and annual revenues from the sale of a relatively small number of
   semiconductor and flat panel display substrate handling systems, which have
   relatively high selling prices compared to its other products. As a result,
   the precise timing of the recognition of revenue from an order for one or a
   small number of systems can have a significant impact on the Company's total
   revenues and operating results for a particular period. The Company's
   operating results for a particular period could be adversely affected if
   orders for a small number of systems are canceled or rescheduled by customers
   or cannot be filled in time to recognize revenue during that period due to,
   for example, unanticipated manufacturing, testing, shipping or product
   acceptance delays. The Company's expense levels are based, in large part, on
   the Company's expectations as to future revenues and are, therefore,
   relatively fixed in the short term. If revenue levels fall below
   expectations, net income will be disproportionately and adversely affected.
   The impact of these and other factors on the Company's revenues and operating
   results in any future period cannot be forecast with any degree of certainty.
   These factors could have a material adverse effect on the Company's business,
   financial condition, revenues and results of operations.

   Dependence on Semiconductor Industry

   The Company's business is significantly dependent on capital expenditures by
   manufacturers of semiconductors. The semiconductor industry is highly
   cyclical and is presently experiencing a period of oversupply, resulting in
   significantly reduced demand for capital equipment, including the products
   manufactured and marketed by the Company. The Company's financial condition,
   revenues and results of operations have been materially and adversely
   affected by the semiconductor industry downturns and may be materially
   adversely affected by future downturns.  The Company believes that downturns
   in the semiconductor manufacturing industry will occur in the future, and
   will result in decreased demand for semiconductor manufacturing equipment. In
   addition, the Company believes (on the basis of its experience during the
   course of the present downturn) that its ability to reduce expenses in a
   future downturn will be constrained by the need for continual investment in
   research and development, and the need to maintain ongoing customer service
   and support capability. Accordingly, any downturn in the semiconductor
   industry could have a material adverse effect on the Company's business,
   financial condition and results of operations.

   Customer Concentration

   Relatively few customers account for a substantial portion of the Company's
   revenues.  Sales to the Company's ten largest customers in the six months
   ended March 31, 1999 and 1998 accounted for 60% and 64% of total revenues,
   respectively.  In the six months ended March 31, 1999 and 1998, sales to one
   customer (not the same customer and not a related party) accounted for 13%
   and 10% of total revenues, respectively. In fiscal 1999 and 1998, sales to
   Lam Research Corporation (a related party), accounted for 10% and 19% of the
   Company's total revenues, respectively.  The Company's customers generally do
   not enter into long-term agreements obligating them to purchase the Company's
   products.  A reduction or delay in orders from any significant customer 

                                 Page 15 of 20
<PAGE>
 
   including reductions or delays due to market, economic or competitive
   conditions in the semiconductor or flat panel display industries, could have
   a material adverse effect on the Company's business, financial condition and
   results of operations.

   Reliance on OEM Customers; Lengthy Sales Cycle

   The Company's products are principally sold to OEMs, which incorporate the
   Company's products into their equipment. Due to the significant capital
   commitments usually incurred by semiconductor and flat panel display
   manufacturers in their purchases of these OEMs' equipment, these
   manufacturers demand highly reliable products which may require several years
   for OEMs to develop. The Company's revenues are therefore primarily dependent
   upon the timing and effectiveness of the efforts of its OEM customers in
   developing and marketing equipment incorporating the Company's products.

   The Company's new products are generally incorporated into an OEM customer's
   process tools at the design stage. However, customer decisions to use the
   Company's products, which can often require significant expenditures by the
   Company without any assurance of success, often precede the generation of
   sales, if any, by a year or more. There can be no assurance that the Company
   will continue to achieve design wins, that the process tools manufactured by
   the Company's customers will be introduced in a timely manner or that such
   systems will achieve market acceptance. The Company's or its customers'
   failure to develop and introduce new products successfully and in a timely
   manner could materially and adversely affect the Company's business,
   financial condition and results of operations.

   Risks of International Sales and Operations

   During the six months ended March 31, 1999 and 1998, the Company derived 46%
   and 33% of its revenues from customers located outside North America. The
   Company anticipates that international revenues will continue to account for
   a significant portion of its revenues. To support its international
   customers, the Company maintains subsidiaries in Japan, South Korea, Taiwan,
   UK, Germany and Singapore. There can be no assurance that the Company will be
   able to manage these operations effectively or that the Company's investment
   in these activities will enable it to compete successfully in international
   markets or to meet the service and support needs of its customers.

   The Company will continue to be affected, for the foreseeable future, by
   unstable Asian economies, particularly in Japan and South Korea.  As a
   result, there are uncertainties that may affect future operations.  It is not
   possible to determine the future effect a continuation of the Asian economic
   situation may have on the Company's liquidity and earnings.

   Additionally, a significant portion of the Company's revenues and operations
   could be subject to certain risks, including tariffs, foreign government
   standards and regulations and other barriers, difficulties in staffing and
   managing foreign subsidiary operations, currency exchange risks and exchange
   controls, adverse tax consequences and difficulty in accounts receivable
   collection. International trade regulations, such as United States export
   controls, could change in the future and make it more difficult for the
   Company to export its products to various countries. There can be no
   assurance that any of these factors will not have a material adverse effect
   on the Company's business, financial condition and results of operations.

   Highly Competitive Industry

   The markets for the Company's products are highly competitive and subject to
   rapid technological change. The Company believes that its primary competition
   is from integrated OEMs that satisfy their semiconductor and flat panel
   display handling needs in-house rather than by purchasing systems or modules
   from an independent supplier such as the Company. Many of these other
   potential competitors have substantially greater resources than the Company.
   There can be no assurance that the Company will be successful in selling its
   products to OEMs that currently satisfy their substrate handling needs in-
   house, regardless of the performance or the price of the Company's products.
   Moreover, there can be no assurance that integrated OEMs will not begin to
   commercialize their handling capabilities. Competitors may develop superior
   products or products of similar quality at the same or lower prices. Other
   technical innovations may impair the Company's ability to market its
   products. There can be no assurance that the Company will be able to compete
   successfully.

                                 Page 16 of 20
<PAGE>
 
   New Products and Rapid Technological Change

   The semiconductor and flat panel display manufacturing industries have been
   characterized by rapid technological change and evolving industry
   requirements and standards.  The Company believes that these trends will
   continue. The Company's success will depend upon its ability to enhance its
   existing products and to develop and market new products to meet customer
   requirements.  Successful product development and introduction depends on a
   number of factors, including accurate new product definition, timely
   completion and introduction of new product designs and market acceptance of
   the Company's products and its customers' products.  Currently, the Company's
   major development programs include expanding its product offerings of
   semiconductor substrate handling systems to address emerging industry
   requirements for 300mm wafer and fourth generation flat panel substrates, as
   well as wafer handling systems and modules for atmospheric process tools.  In
   addition, the Company continues to develop and enhance its MES and process
   control software product offerings.  There can be no assurance that the
   Company will adjust to changing market conditions or be successful in
   introducing products or product enhancements on a timely basis, if at all, or
   that the Company will be able to successfully market these products and
   product enhancements once developed. Further, there can be no assurance that
   the Company's products will not be rendered obsolete by new industry
   standards or changing technology.

   Attraction and Retention of Key Personnel

   Due to the level of technical and marketing expertise necessary to support
   its existing and new customers, the Company must attract and retain highly
   qualified and well trained domestic and international personnel.  There are a
   limited number of persons with the requisite skills to serve in these
   positions, and it may become increasingly difficult for the Company to hire
   such personnel.  Competition for such personnel is intense, and there can be
   no assurance that the Company will attract and retain personnel necessary for
   the development of its business.

   Risks Associated with Acquisitions

   The Company completed the acquisition of FASTech on September 30, 1998, and
   Hanyon Technology in April 1999. Additionally, the Company is considering the
   acquisition of companies, technologies, or products in 1999 which are
   complementary to its business. Acquisitions by the Company of other companies
   or businesses will require, among other things, integration of the companies'
   respective products, technologies, management information systems,
   distribution channels and key personnel, and the coordination of their sales,
   marketing and research and development efforts. There can be no assurance
   that such integration will be accomplished smoothly or successfully, if at
   all. If significant difficulties are encountered in the integration of the
   existing products or technologies or the development of new products and
   technologies, resources could be diverted from new product development; and
   delays in new product introductions could occur. The integration of
   operations and technologies will require the dedication of management and
   other personnel which may distract their attention from the day-to-day
   business of the Company, the development or acquisition of new technologies,
   and the pursuit of other business acquisition opportunities. Failure to
   successfully accomplish the integration and development of the companies'
   operations and technologies would likely have a material adverse effect on
   the Company's business, financial condition, and results of operations.

   Intellectual Property Protection and Related Contingency

   The Company relies upon trade secrets and patents to protect its technology.
   Due to the rapid technological change that characterizes the semiconductor
   and flat panel display process equipment industries, the Company believes
   that the improvement of existing technology, reliance upon trade 

                                 Page 17 of 20
<PAGE>
 
   secrets and unpatented proprietary know-how and the development of new
   products may be more important than patent protection in establishing and
   maintaining a competitive advantage. It is the Company's policy to require
   all technical and management personnel to enter into nondisclosure
   agreements. Nevertheless, the Company has obtained patents and will continue
   to make efforts to obtain patents, when available, in connection with its
   product development programs. There can be no assurance that any patent
   obtained will provide protection or be of commercial benefit to the Company,
   or that its validity will not be challenged. Despite these efforts, there can
   be no assurance that others will not independently develop substantially
   equivalent proprietary information and techniques or otherwise gain access to
   the Company's trade secrets or disclose such technology or that the Company
   can meaningfully protect its trade secrets. There can be no assurance that
   the Company's pending patent applications or any future applications will be
   approved, that any patents will provide it with competitive advantages or
   will not be challenged by third parties, or that the patents of others will
   not have an adverse effect on the Company's ability to do business. There can
   be no assurance that others will not independently develop similar products,
   duplicate the Company's products or, if patents are issued to the Company,
   design around the patents issued to the Company. Others may have filed and in
   the future may file patent applications that are similar or identical to
   those of the Company. No assurance can be given that any such patent
   application will not have priority over patent applications filed by the
   Company.

   There has been substantial litigation regarding patent and other intellectual
   property rights in the semiconductor related industries.  The Company had
   received notice from General Signal Corporation ("General Signal") alleging
   infringement of patents then owned by General Signal, relating to cluster
   tool architecture, by certain of the Company's products.  The notification
   advised the Company that General Signal was attempting to enforce its rights
   to those patents in litigation against Applied Materials, Inc. ("Applied
   Materials"). According to a press release issued by Applied Materials,
   Applied Materials settled its litigation with General Signal by acquiring
   ownership of five General Signal patents.  Although not verified, these five
   patents would appear to be the patents referred to by General Signal in its
   prior notice to the Company.  Applied Materials has not contacted the Company
   regarding these newly acquired patents.  The Company has in the past been,
   and may in the future be, notified that it may be infringing intellectual
   property rights possessed by other third parties.  Any patent litigation
   would be costly and could divert the efforts and attention of the Company's
   management and technical personnel, which could have a material adverse
   effect on the Company's business, financial condition and results of
   operations.  There can be no assurance that infringement claims by third
   parties or other claims for indemnification by customers or end users of the
   Company's products resulting from infringement claims will not be asserted in
   the future or that such assertions, if proven to be true, will not materially
   and adversely affect the Company's business, financial condition and results
   of operations. If any such claims are asserted against the Company's
   intellectual property rights it may seek to enter into a royalty or licensing
   arrangement.  There can be no assurance, however, that a license will be
   available on reasonable terms or at all.  The Company could decide, in the
   alternative to resort to litigation to challenge such claims or to design
   around the patented technology.  Such actions could be costly and would
   divert the efforts and attention of the Company's management and technical
   personnel, which would materially and adversely affect the Company's
   business, financial condition and results of operations.

   Volatility of Stock Price

   The Company believes that a variety of factors could cause the price of the
   Company's Common Stock to fluctuate, perhaps substantially, including:
   announcements of developments related to the Company's business, quarterly
   fluctuations in the Company's 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 the Company or its
   competitors, developments in patents or other intellectual property rights
   and litigation, and developments in the Company's relationships with its
   customers and suppliers. In addition, in recent years 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 the Company's Common Stock. There can be no
   assurance that the market price of the Common Stock of the Company will not
   decline.

                                 Page 18 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

                          PART II.  OTHER INFORMATION


Item 4        SUBMISSION OF MATTERS TO A VOTE OF SECURITY HOLDERS.
              ----------------------------------------------------

              The following matter was submitted to a vote of security holders
              during the Company's Annual Meeting held February 25, 1999.

              1. Election of directors:

                                        Votes Cast For  Authority Withheld
                                        --------------  ------------------
                 Robert J. Therrien       8,909,158          137,598
                 Roger D. Emerick         8,909,158          137,598
                 Amin J. Khoury           8,908,725          138,031

Item 6 (a)    EXHIBITS.
              ---------

              Exhibit No.
              -----------
               2.03        Stock for Cash Purchase Agreement dated as of March 
                           31, 1999 among the registrant, Hanyon, and certain
                           other parties, incorporated by reference to the
                           Company's Current Report on Form 8-K dated May 6,
                           1999.


              27.01        Financial Data Schedule

Item 6 (b)    REPORTS ON FORM 8-K
              -------------------

     The Company filed a Current Report on Form 8-K dated May 6, 1999, reporting
     the acquisition of Hanyon Technology.

                                 Page 19 of 20
<PAGE>
 
                                  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.



                                         
      May 14, 1999                 /s/ Robert J. Therrien
- ------------------------           ---------------------------------------------
                                   Robert J. Therrien
                                   Director and President
                                   (Principal Executive Officer)

      May 14, 1999                 /s/ Ellen B. Richstone
- ------------------------           ---------------------------------------------
                                   Ellen B. Richstone
                                   Senior Vice President and
                                   Chief Financial Officer
                                   (Principal Financial Officer)

                                 Page 20 of 20

<TABLE> <S> <C>

<PAGE>
<ARTICLE> 5
<LEGEND>
THIS SCHEDULE CONTAINS SUMMARY FINANCIAL INFORMATION EXTRACTED FROM 3/31/1999
FORM 10-Q AND IS QUALIFIED IN ITS ENTIRETY BY REFERENCE TO SUCH FINANCIAL
STATEMENTS.
</LEGEND>
<MULTIPLIER> 1,000
       
<S>                             <C>
<PERIOD-TYPE>                   6-MOS
<FISCAL-YEAR-END>                          SEP-30-1999
<PERIOD-START>                             OCT-01-1998
<PERIOD-END>                               MAR-31-1999
<CASH>                                          69,277
<SECURITIES>                                         0
<RECEIVABLES>                                   25,104
<ALLOWANCES>                                     1,981
<INVENTORY>                                     16,839
<CURRENT-ASSETS>                               118,314
<PP&E>                                          41,751
<DEPRECIATION>                                  24,263
<TOTAL-ASSETS>                                 140,172
<CURRENT-LIABILITIES>                           17,572
<BONDS>                                             11
                                0
                                          0
<COMMON>                                           111
<OTHER-SE>                                     121,730
<TOTAL-LIABILITY-AND-EQUITY>                   140,172
<SALES>                                         33,635
<TOTAL-REVENUES>                                43,085
<CGS>                                           18,024
<TOTAL-COSTS>                                   23,977
<OTHER-EXPENSES>                                20,544
<LOSS-PROVISION>                                   173
<INTEREST-EXPENSE>                                  27
<INCOME-PRETAX>                                  (136)
<INCOME-TAX>                                       305
<INCOME-CONTINUING>                              (441)
<DISCONTINUED>                                       0
<EXTRAORDINARY>                                      0
<CHANGES>                                            0
<NET-INCOME>                                     (441)
<EPS-PRIMARY>                                    (.04)
<EPS-DILUTED>                                    (.04)
        

</TABLE>


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