BROOKS AUTOMATION INC
10-Q, 1998-05-14
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, 1998

                                      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, 1998, THERE WERE OUTSTANDING 10,112,721
     SHARES OF THE COMPANY'S COMMON STOCK, $.01 PAR VALUE.

     THIS REPORT, INCLUDING ALL EXHIBITS AND ATTACHMENTS,
     CONTAINS 20 PAGES.
<PAGE>
 
                            BROOKS AUTOMATION, INC.

                                     INDEX

<TABLE>
<CAPTION>
                                                                        PAGE
PART 1              FINANCIAL INFORMATION                              NUMBER
- ------              ---------------------                              ------
<S>                 <C>                                                <C>
Item 1                Financial Statements:
 
                      Consolidated Balance Sheet                            3
 
                      Consolidated Statement of Operations                  4
 
                      Consolidated Statement of Cash Flows                  5
 
                      Notes to Consolidated Financial Statements          6-7
 
Item 2                Management's Discussion and Analysis of Financial
                      Condition and Results of Operations                8-17
 
PART II               OTHER INFORMATION
- -------               -----------------
 
Item 5                Other Information                                    18
 
Item 6                Exhibits and Reports on Form 8-K                     18
          
Signatures                                                                 19
</TABLE>

                                 Page 2 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.
                          CONSOLIDATED BALANCE SHEET
                   (IN THOUSANDS, EXCEPT SHARE-RELATED DATA)

<TABLE> 
<CAPTION>  
                                                                                 MARCH 31,           SEPTEMBER 30, 
                                                                                   1998                  1997      
                                                                                (UNAUDITED)                         
<S>                                                                             <C>                  <C> 
ASSETS
Current assets:
  Cash and cash equivalents                                                     $   65,462            $   71,753
  Accounts receivable, net of allowance for doubtful accounts of $376 and
   $160, respectively, and including related party receivables of $6,256
   and $5,204, respectively                                                         23,522                28,408
  Inventories                                                                       26,659                23,253
  Prepaid expenses and other current assets                                          2,946                 1,980
  Deferred income taxes                                                              4,510                 1,710
                                                                                ----------            ----------
     Total current assets                                                          123,099               127,104

Fixed assets, net                                                                   19,161                19,054
Other assets                                                                         3,528                 3,572
                                                                                ----------            ----------
     Total assets                                                               $  145,788            $  149,730
                                                                                ----------            ----------

LIABILITIES AND STOCKHOLDERS' EQUITY
Current liabilities:
  Current portion of long-term debt and capital lease obligations               $      150            $      399
  Accounts payable                                                                   9,155                 9,125
  Accrued compensation and benefits                                                  2,700                 2,719
  Accrued expenses and other current liabilities                                     2,285                 2,193
                                                                                ----------            ----------
     Total current liabilities                                                      14,290                14,436

Long-term debt and capital lease obligations                                            72                   190
Deferred income taxes                                                                1,008                   905
                                                                                ----------            ----------
     Total liabilities                                                              15,370                15,531
                                                                                ----------            ----------
Commitments and contingency

Stockholders' equity:                                                                    -                     -
  Preferred stock, $.01 par value; 1,000,000 shares authorized; none
   issued and outstanding                                                                -                     -
  Common stock, $.01 par value 21,500,000 shares authorized;
   10,111,221 and 10,052,663 shares issued and outstanding, respectively               101                   101
  Additional paid-in-capital                                                       117,500               117,139
  Cumulative translation adjustment                                                   (180)                    5
  Deferred compensation                                                               (343)                 (416)
  Retained earnings                                                                 13,340                17,370
                                                                                ----------            ----------
     Total stockholders' equity                                                    130,418               134,199
                                                                                ----------            ----------
     Total liabilities and stockholders' equity                                 $  145,788            $  149,730
                                                                                ----------            ----------
</TABLE> 

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

                                 Page 3 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.
                     CONSOLIDATED STATEMENT OF OPERATIONS
                     (IN THOUSANDS, EXCEPT PER SHARE DATA)
                                  (UNAUDITED)

<TABLE> 
<CAPTION> 
                                         SIX MONTHS ENDED   THREE MONTHS ENDED
                                            MARCH 31,           MARCH 31,     
                                          1998      1997      1998      1997 
<S>                                     <C>       <C>       <C>       <C> 
Revenues                                $ 44,841  $ 32,544  $ 20,211  $ 16,433
Cost of revenues                          35,560    22,666    18,951    12,035
                                        --------  --------  --------  -------- 
   Gross profit                            9,281     9,878     1,260     4,398
                                        --------  --------  --------  --------  
Operating expenses:
 Research and development                  9,733     6,108     4,620     3,298
 Selling, general and administrative       8,044     5,537     3,997     2,983
                                        --------  --------  --------  --------  
   Total operating expenses               17,777    11,645     8,617     6,281
                                        --------  --------  --------  --------  
Loss from operations                      (8,496)   (1,767)   (7,357)   (1,883)
Interest expense                             173       257        33       186
Interest income                            1,878        16       939         -
                                        --------  --------  --------  --------  
Loss before income taxes                  (6,791)   (2,008)   (6,451)   (2,069)
Income tax benefit                        (2,761)     (504)   (2,651)     (525)
                                        --------  --------  --------  --------  
Net loss                                $ (4,030) $ (1,504) $ (3,800) $ (1,544)
                                        --------  --------  --------  --------  

Basic losses per share                  $  (0.40) $  (0.20) $  (0.38) $  (0.20)
                                        --------  --------  --------  --------  

Diluted losses per share                $  (0.40) $  (0.20) $  (0.38) $  (0.20)
                                        --------  --------  --------  --------  

Shares used in calculating basic and
 diluted losses per share                 10,080     7,600    10,107     7,625
                                        --------  --------  --------  --------  
</TABLE> 

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

                                 Page 4 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.
                     CONSOLIDATED STATEMENT OF CASH FLOWS
                                (IN THOUSANDS) 
                                  (UNAUDITED)

<TABLE> 
<CAPTION> 
                                                          SIX MONTHS ENDED
                                                              MARCH 31,
                                                         1998           1997
<S>                                                    <C>            <C> 
INCREASE (DECREASE) IN CASH AND CASH EQUIVALENTS            

CASH FLOWS FROM OPERATING ACTIVITIES    
Net loss                                               $ (4,030)      $ (1,504)
 Adjustments to reconcile net loss to net cash         
  provided by (used in) operating activities:
   Depreciation and amortization                          2,846          1,966
   Amortization of deferred financing fee                   115             20
   Compensation expense related to common stock             
    options                                                  73              9
   Deferred income taxes                                 (2,704)             -
   Changes in operating assets and liabilities:
    Accounts receivable                                   4,823          1,788
    Inventories                                          (3,602)          (648)
    Prepaid expenses and other current assets              (497)        (2,125)
    Accounts payable                                         46           (876)
    Accrued compensation and benefits                        18           (498)
    Accrued expenses and other current liabilities         (434)           295
                                                       --------       --------
       Net cash used in operating activities             (3,346)        (1,573)
                                                       --------       --------

CASH FLOWS FROM INVESTING ACTIVITIES
Purchases of fixed assets                                (2,521)        (3,489)
Increase in other assets                                   (540)        (1,260)
                                                       --------       --------
       Net cash used in investing activities             (3,061)        (4,749)
                                                       --------       --------

CASH FLOWS FROM FINANCING ACTIVITIES
Net borrowings under line of credit                           -          4,956
Principal payments on long-term debt and capital                               
 lease obligations                                         (367)          (216) 
Proceeds from issuance of common stock                      361            318
                                                       --------       --------
       Net cash provided by (used in) financing 
        activities                                           (6)         5,058
                                                       --------       -------- 

Effects of exchange rate changes on cash and cash           
 equivalents                                                122            (43)
                                                       --------       -------- 

Net decrease in cash and cash equivalents                (6,291)        (1,307)
                                                       --------       -------- 

Cash and cash equivalents, beginning of period           71,753          2,102
                                                       --------       -------- 

Cash and cash equivalents, end of period               $ 65,462       $    795
                                                       ========       ========
</TABLE> 

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

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

                  NOTES TO CONSOLIDATED FINANCIAL STATEMENTS
                                  (UNAUDITED)


1.   BASIS OF PRESENTATION
     ---------------------

     The accompanying unaudited consolidated financial statements of Brooks
     Automation, Inc. and its subsidiaries (the "Company") have been prepared in
     accordance with generally accepted accounting principles and with 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 accompanying unaudited consolidated financial
     statements should be read in conjunction with the audited consolidated
     financial statements of the Company which are included in the Company's
     Annual Report on Form 10-K for the year ended September 30, 1997.

     The results of operations for the six months and three months ended March
     31, 1998 are not necessarily indicative of the results that may be expected
     for the fiscal year ending September 30, 1998.

2.   INVENTORIES
     -----------

<TABLE> 
<CAPTION>  
     Inventories consist of the following:    March 31,   September 30,
     (in thousands)                             1998         1997
                                                ----         ---- 
<S>                                           <C>         <C> 
     Raw materials and purchased parts         $16,251      $14,750
     Work-in-process                             7,778        7,745
     Finished goods                              2,630          758
                                               -------      -------
                                               $26,659      $23,253
                                               =======      =======
</TABLE>

3.   EARNINGS (LOSSES) PER SHARE
     ---------------------------

     On October 1, 1997, the Company adopted Statement of Financial Accounting
     Standards No. 128, "Earnings per Share" (SFAS128), which establishes
     standards for computing and presenting earnings per share. The new standard
     replaces the presentation of earnings per share as prescribed in Accounting
     Principles Board Opinion No. 15, "Earnings per Share" (APB15) with a
     presentation of basic and diluted earnings per share on the face of the
     statement of operations. Basic earnings per share excludes dilution and is
     computed by dividing income available to common stockholders by the
     weighted-average number of common shares outstanding for the period. The
     diluted earnings per share computation is similar to primary diluted
     earnings per share pursuant to APB15. The Company has restated all prior
     period earnings per share amounts in accordance with the requirements of
     SFAS128. The dilutive potential shares have been excluded from the diluted
     earnings per share calculation for all periods presented due to their anti-
     dilutive effect.

4.   SIGNIFICANT CUSTOMER AND RELATED PARTY INFORMATION
     --------------------------------------------------

     During the six months ended March 31, 1998 and 1997, the Company had
     revenues from related parties representing 23% and 19% of revenues,
     respectively. During the three months ended March 31, 1998 and 1997, the
     Company had revenues from related parties representing 28% and 17% of
     revenues, respectively. At March 31, 1998 and September 30, 1997, related
     party accounts receivable accounted for 27% and 18% of total accounts
     receivable, respectively.

                                 Page 6 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

                  NOTES TO CONSOLIDATED FINANCIAL STATEMENTS
                                  (UNAUDITED)


     During the six months ended March 31, 1998, the Company had revenues from a
     customer (not a related party) representing 11% of revenues. During the six
     months ended March 31, 1997, the Company had revenues from two customers
     (not related parties) representing 12% and 10% of total revenues. During
     the three months ended March 31, 1998, the Company had revenues from two
     customers (not related parties) which each represented 11% of revenues.
     During the three months ended March 31, 1997, the Company had revenues from
     two customers (not related parties) representing 10% and 13% of revenues,
     respectively.


5.   STOCK PLANS
     -----------

     On February 26, 1998, the stockholders of the Company approved an increase
     in the number of shares of common stock available for issuance under the
     1992 Combination Stock Option Plan from 1,550,000 to 1,950,000.
     Additionally, on February 26, 1998 the Company's stockholders approved an
     increase in the number of shares of common stock available for issuance
     under the 1995 Employee Stock Purchase Plan from 150,000 to 250,000.

6.   CONTINGENCY
     -----------

     There has been substantial litigation regarding patent and other
     intellectual property rights in the semiconductor related industries. The
     Company has received notice from a third party alleging infringements of
     such party's patent rights, relating to cluster tool architecture, by
     certain of the Company's products. 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 that it is probable that future events related to this
     threatened matter will have an adverse effect on the Company's business.
     The Company is currently unable to reasonably estimate any possible loss
     related to this matter.

                                 Page 7 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

               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

     The predecessor of Brooks Automation, Inc. (the "Company") was organized in
     February 1989 and acquired the semiconductor wafer handling business of the
     Brooks Automation Division of Aeronca Electronics, Inc., a subsidiary of
     Fleet Aerospace Corporation, in March 1989. The Company and its
     predecessors have been in the semiconductor wafer handling business since
     1978.

     Since the acquisition in 1989, the Company has invested over $50.0 million
     in research and development focused primarily on vacuum transfer robots and
     other vacuum automation modules and systems. 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
     (now Brooks Automation Software), 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.

     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 records revenue from product sales upon shipment to the
     customer provided that no significant Company obligations remain and
     collection of the related receivable is deemed probable by management. When
     insignificant Company obligations remain after shipment of the product, the
     Company accrues for the estimated cost of such obligation upon shipment.
     Additionally, the Company accrues for any estimated warranty costs upon
     shipment.

     Most 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 Japan, South Korea and Europe.

     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 

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

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL
                      CONDITION AND RESULTS OF OPERATIONS


     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. 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 on 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.


     RESULTS OF OPERATIONS

     The following table sets forth certain financial data for the periods
     indicated as a percentage of revenues:

<TABLE> 
<CAPTION> 
                                                Six months ended     Three months ended      
                                                    March 31,              March 31,         
                                                1998        1997     1998          1997      
                                               ------      ------   ------        ------     
     <S>                                       <C>         <C>      <C>           <C>        
     Revenues                                   100.0 %     100.0 %  100.0 %       100.0 %   
     Cost of revenues                            79.3        69.6     93.8          73.2     
                                               ------      ------   ------        ------     
     Gross profit                                20.7        30.4      6.2          26.8     
     Operating expenses:                                                                     
       Research and development                  21.7        18.8     22.8          20.1     
       Selling, general and administrative       17.9        17.0     19.8          18.2     
                                               ------      ------   ------        ------      
     Loss from operations                       (18.9)       (5.4)   (36.4)        (11.5)    
     Interest expense                             0.4         0.8      0.2           1.1     
     Interest income                              4.2         0.0      4.7             -     
                                               ------      ------   ------        ------     
     Loss before income taxes                   (15.1)       (6.2)   (31.9)        (12.6)    
     Income tax benefit                          (6.1)       (1.6)   (13.1)         (3.2)
                                               ------      ------   ------        ------     
     Net loss                                    (9.0) %     (4.6) % (18.8) %       (9.4) %  
                                               ------      ------   ------        ------      
</TABLE> 
 

     The net loss for the three and six month periods ended March 31, 1998 are
     attributed primarily to the continuing softness in demand for semiconductor
     and flat panel display fabrication equipment, as well as ongoing
     uncertainty about business conditions in Asia. The Company remains cautious
     about when growth in the semiconductor fabrication equipment sector will
     return.

     THREE MONTHS AND SIX MONTHS ENDED MARCH 31, 1998 COMPARED WITH THREE MONTHS
     AND SIX MONTHS ENDED MARCH 31, 1997

     Revenues

     Revenues for the three months ended March 31, 1998 increased 23.0% to $20.2
     million compared with revenues of $16.4 million in the comparable prior
     fiscal period. Revenues for the six months ended March 31, 1998 increased
     37.8% to $44.8 million compared with revenues of $32.5 million in the
     comparable prior fiscal period. Revenues from 200mm vacuum central wafer
     handling systems and components increased 58.6% or $4.7 million and 69.3%

                                 Page 9 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL
                      CONDITION AND RESULTS OF OPERATIONS

     or $11.8 million for the three months and six months ended March 31, 1998,
     respectively,  due primarily to increased shipments resulting from improved
     market demand for semiconductor fabrication equipment.  The increase in
     200mm product revenues in the current quarter was offset primarily by
     decreased flat panel display product revenues. Increased control software
     and service revenues, offset by decreased revenues from shipments of 300 mm
     and flat panel display products,  also contributed to the overall increase
     in revenues in the first half of fiscal 1998.

     Foreign revenues for the three months ended March 31, 1998 increased 31.0%
     to $5.4 million (26.5% of revenues), including $4.7 million of direct sales
     to Asian customers, compared with foreign revenues of $4.1 million (24.9%
     of revenues), including $3.1 million of direct sales to Asian customers in
     the comparable prior fiscal period. Foreign revenues for the six months
     ended March 31, 1998 increased 32.3% to $14.1 million (31.4% of revenues),
     including $10.5 million of direct sales to Asian customers, compared with
     foreign revenues of $10.6 million (32.6% of revenues), including $8.4
     million of direct sales to Asian customers in the comparable prior fiscal
     period. The Company expects that foreign revenues will continue to account
     for a significant portion of total revenues in fiscal 1998. The Company has
     been adversely affected by the unstable economy in Asia. There can be no
     assurance that the geographical growth rates, if any, in the foreseeable
     future, particularly in Asia which is suffering regional economic
     downturns, will be comparable to those achieved in the six months ended
     March 31, 1998. See "Risk of International Sales and Operations".

     GROSS PROFIT
     Gross profit as a percentage of revenues was 6.2% and 20.7%, respectively,
     for the three months and six months ended March 31, 1998 compared with
     26.8% and 30.4%, respectively, for the comparable prior fiscal periods.
     During the three months ended March 31, 1998, the Company recorded a
     nonrecurring charge of $4.2 million primarily to provide additional
     reserves for slow-moving and obsolete inventories.  These reserves reflect
     management's assessment of the currently required inventory reserve level
     in view of the accelerating decline, particularly in the current quarter,
     in customer demand for semiconductor and flat panel display fabrication
     equipment, coupled with management's expectation of a prolonged recovery
     period.  Gross profit as a percentage of revenues was relatively flat at
     27.0%, before nonrecurring charges, for the three months ended March 31,
     1998 compared with 26.8% for the comparable prior fiscal period. Gross
     profit as a percentage of revenues decreased to 30.1%, before nonrecurring
     charges, for the six months ended March 31, 1998 compared with 30.4% for
     the comparable prior fiscal period. The decrease in the gross profit
     percentage in the first half of fiscal 1998, before nonrecurring charges,
     is attributable to underutilization of manufacturing capacity primarily due
     to customer requested shipment delays and pricing pressure from volume
     production customers, partially offset by the sales mix of higher gross
     margin 200mm products.

     Global support costs, primarily comprised of personnel costs and travel
     expenses, were $1.6 million and $3.1 million, respectively, for the three
     months and six months ended March 31, 1998, compared to $1.6 million and
     $2.9 million in the comparable prior fiscal periods, respectively.  Global
     support costs decreased as a percentage of revenues to 7.9% and 6.9%,
     respectively for the three months and six months ended March 31, 1998 as
     compared with 9.8% and 8.9% of revenues for the comparable prior fiscal
     periods.  The decrease in global support costs as a percentage of revenues
     reflects the leveraging of the Company's investment in its global support
     infrastructure coupled with increased revenues as compared with the
     comparable prior fiscal period.  In future periods, gross profit may be
     adversely affected by changes in the mix of products sold, continued
     pricing pressure or increases in the cost of goods and global support.

                                 Page 10 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL
                      CONDITION AND RESULTS OF OPERATIONS


     RESEARCH AND DEVELOPMENT
     Research and development expenses increased 40.1% to $4.6 million (22.8% of
     revenues) for the three months ended March 31, 1998 from $3.3 million
     (20.1% of revenues) in the comparable prior fiscal period. Research and
     development expenses increased 59.3% to $9.7 million (21.7% of revenues)
     for the six months ended March 31, 1998 from $6.1 million (18.8% of
     revenues) in the comparable prior fiscal period.  The increase in research
     and development expenses in the current quarter and first half of fiscal
     1998 primarily resulted from incremental spending associated with the
     launch of new atmospheric products and the transition to next generation
     vacuum wafer handling products.

     SELLING, GENERAL AND ADMINISTRATIVE
     Selling, general and administrative expenses increased 34.0% to $4.0
     million (19.8% of revenues) for the three months ended March 31, 1998 from
     $3.0 million (18.2% of revenues) in the comparable prior fiscal period.
     Selling, general and administrative expenses increased 45.3% to $8.0
     million (17.9% of revenues) for the six months ended March 31, 1998 from
     $5.5 million (17.0% of revenues) in the comparable prior fiscal period.
     The increase in selling, general and administrative expenses is due
     primarily to the worldwide expansion of the Company's sales and
     administrative organizations to support revenue growth.

     INTEREST EXPENSE AND INTEREST INCOME
     Interest expense for the three months ended March 31, 1998 decreased to
     $33,000 (0.2% of revenues) from $186,000 (1.1% of revenues) in the
     comparable prior fiscal period.  Interest expense for the six months ended
     March 31, 1998 decreased to $173,000 (0.4% of revenues) from $257,000 (0.8%
     of revenues) in the comparable prior fiscal period.  The decrease in
     interest expense is due primarily to the repayment of short-term borrowings
     under revolving credit facilities in September 1997, partially offset by
     amortization of $115,000 of deferred financing costs in the first quarter
     of fiscal year 1998.  There were no borrowings outstanding under the
     revolving credit facilities at March 31, 1998.  The amortization of
     deferred financing costs included in interest expense in the first quarter
     of fiscal 1998 resulted from the repayment of the related note payable in
     September 1997.  Interest income increased to $939,000 (4.7% of revenues)
     for the three months ended March 31, 1998.  Interest income for the six
     months ended March 31, 1998 increased to $1,878,000 (4.2% of revenues) from
     $16,000 in the comparable prior fiscal period. The increases in interest
     income are due to higher cash and investment balances during the first half
     of fiscal 1998, resulting from the Company's $80.8 million public stock
     offering in September 1997.

     INCOME TAX PROVISION (BENEFIT)
     The Company recorded net tax benefits of $2.7 million and $2.8 million,
     respectively, during the three months and six months ended March 31, 1998
     and net tax benefits of $525,000 and $504,000, respectively, during the
     comparable prior fiscal periods, primarily due to the tax benefit of
     domestic net operating losses and research and development tax credit
     carryforwards.


     LIQUIDITY AND CAPITAL RESOURCES

     As of March 31, 1998, the Company had working capital of $108.8 million,
     including $65.5 million of cash and cash equivalents, compared with working
     capital of $112.7 million, including $71.8 million of cash and cash
     equivalents, as of September 30, 1997.  During the six months ended March
     31, 1998, the Company used cash of $3.3 million in operating activities,
     primarily to finance increased inventory levels.  Inventories increased
     during the six months ended March 31, 1998, net of a $4.0 million increase
     in inventory reserves, primarily due to continuing softness in demand for
     semiconductor fabrication equipment and previously unanticipated customer

                                 Page 11 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL
                      CONDITION AND RESULTS OF OPERATIONS


     requested shipment delays.  Investing activities during the six months
     ended March 31, 1998 consisted primarily of capital spending for
     information systems and facility improvements.  The Company anticipates
     that it will continue to make capital expenditures to support its business
     activities.  Financing activities during the six months ended March 31,
     1998 consisted primarily of the issuance of common stock under the employee
     stock purchase plan and the repayment of long-term debt and capital lease
     obligations. There were no borrowings outstanding under the Company's
     credit facilities at March 31, 1998.

     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. 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; however,
     there can be no assurance that this will be the case. The Company is
     currently unable to reasonably estimate any possible loss related to this
     matter.

     The Company believes that available funds will be adequate to fund the
     Company's currently planned working capital and capital expenditure
     requirements for the next twelve months.


     FACTORS THAT MAY AFFECT FUTURE 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; 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, future 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 has experienced periods of oversupply, resulting in
     significantly reduced demand for capital equipment, including the products
     manufactured and marketed by the Company. The


                                 Page 12 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL
                      CONDITION AND RESULTS OF OPERATIONS

     Company's future financial condition, revenues and results of operations
     may be materially and adversely affected by semiconductor industry
     downturns or slowdowns. 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 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,
     future 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, 1998, fiscal 1997 and fiscal 1996 accounted for 76%, 71%
     and 69% of revenues, respectively.  In the six months ended March 31, 1998
     and in fiscal 1997 and fiscal 1996, sales to Lam Research Corporation
     ("Lam"), the Company's largest customer in these periods, accounted for
     23%, 21% and 21% of the Company's revenues respectively, in each of these
     fiscal periods. The Company expects that sales to Lam will continue to
     represent a significant portion of the Company's revenues for the
     foreseeable future. The Company's customers, including Lam, generally do
     not enter into long-term agreements obligating them to purchase the
     Company's products. A reduction or delay in orders from Lam or other
     significant customers, 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 volume 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, 1998, fiscal 1997 and fiscal 1996,
     the Company derived approximately 31%, 38% and 20% of its revenues from
     customers located outside the United States.  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, Europe, South Korea, Taiwan 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.

                                 Page 13 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL
                      CONDITION AND RESULTS OF OPERATIONS

     The Company will continue to be affected, for the foreseeable future, by
     the unstable economy caused by currency volatility, 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 economic crisis may have on the Company's liquidity and
     earnings.  Related effects will be reported in the financial statements as
     they become known and estimable.

     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.

     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 and flat panel display 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 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 market successfully 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.

     MANAGEMENT OF GROWTH
     The Company's strategy is to grow by providing hardware and software
     solutions to enhance semiconductor and flat panel display substrate
     handling systems of advanced tools used to produce semiconductors and flat
     panel displays. 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 is 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. The Company will also be
     required to manage its expanding international operations, to effect timely
     deliveries of its products and to maintain the product quality and
     reliability required by its customers. The Company's expansion may also
     significantly strain the Company's management, manufacturing, financial and
     other resources. There can be no assurance that the Company's systems,
     procedures, controls and existing space will be adequate to support the
     Company's operations. Failure to properly manage the Company's growth, if
     any, could have a material adverse effect on the Company's business, future
     financial condition and results of operations.


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

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF 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.


     RISKS ASSOCIATED WITH POSSIBLE ACQUISITIONS
     The Company may pursue potential acquisitions of businesses, products and
     technologies that could complement or expand the Company's business. The
     Company currently has no plans, commitments or agreements with respect to
     any material acquisitions and there can be no assurance that the Company
     will be able to identify any appropriate acquisition candidates. If the
     Company identifies an acquisition candidate, there can be no assurance that
     the Company will be able to successfully negotiate the terms of any such
     acquisition, finance such acquisition or integrate such acquired
     businesses, products or technologies into the Company's existing business
     and products. The negotiation of potential acquisitions as well as the
     integration of an acquired business could cause diversion of management's
     time and resources. Future acquisitions by the Company could result in
     potentially dilutive issuances of equity securities, the incurrence of debt
     and contingent liabilities and amortization expenses. If any such
     acquisition were to occur, there can be no assurance that, whether or not
     consummated, any such acquisition would not have a material adverse effect
     on the Company's business, future financial condition and results of
     operations.

     INTELLECTUAL PROPERTY PROTECTION AND RELATED CONTINGENCY
     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. Because foreign patents may afford less protection
     under foreign law than is available under United States patent law, there
     can be no assurance that any such patents issued to the Company will
     adequately protect the Company's proprietary information. 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. To determine the priority
     of inventions, the Company may have to participate in interference
     proceedings declared by the United States Patent and Trademark Office that
     could result in substantial cost to the Company. No assurance can be given
     that any such patent application will not have priority over patent
     applications filed by the Company.

     The Company also relies upon trade secret protection, employee and third-
     party nondisclosure agreements and other intellectual property protection
     methods to protect its confidential and proprietary information. 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.

                                 Page 15 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL
                      CONDITION AND RESULTS OF OPERATIONS

     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 infringements of General Signal's patent rights, 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"), and that, at the conclusion of that
     litigation, General Signal intended to enforce its rights against the
     Company and others.  According to a recent 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.

     In 1992, at the time that General Signal first raised patent claims in the
     cluster tool area, the Company joined with six major semiconductor process
     tool equipment manufacturers in forming an "Ad Hoc Committee for the
     Defense against General Signal Cluster Tool Patents."  At that time, the
     members of the Ad Hoc Committee notified General Signal that the member
     companies were of the opinion that the General Signal patents were invalid
     based on (i) prior art, (ii) inequitable conduct before the Patent &
     Trademark Office and (iii) estoppel as a result of General Signal's
     activities in establishing standards for cluster tools and interfaces
     within the semiconductor industry.  The Company believes that the position
     taken by the Ad Hoc Committee remains valid.  However, if the holder of
     these patents were to seek to enforce these patents against the Company,
     there can be no assurance that the Company would prevail in such
     litigation.

     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 could materially and adversely affect the Company's business,
     financial condition and results of operations.

                                 Page 16 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

               MANAGEMENT'S DISCUSSION AND ANALYSIS OF 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 17 of 20
<PAGE>
 
                            BROOKS AUTOMATION, INC.

                           PART II.OTHER INFORMATION


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

           The following matters were submitted to a vote of security holders
during the Company's Annual Meeting held February 26, 1998.

<TABLE>
<CAPTION>
                                     Votes Cast For     Authority Withheld
                                     --------------     ------------------
<S>                                  <C>                <C>       
1.    Election of directors:
 
      Robert J. Therrien              8,544,005                  23,797
      Norman B. Brooks                8,536,666                  31,136
      Roger D. Emerick                8,536,595                  31,207
      Amin J. Khoury                  8,500,966                  66,836
 
                                                                                Votes Cast                          
                                                                                ---------                           
                                                                                                               Broker   
                                                                            For      Against   Abstentions  Non-votes 
                                                                            ---      -------   -----------  ---------  
 
2.    Approval of amendment to the Company's 1992 Combination Stock
      Option Plan to increase the number of shares of Common Stock        6,503,847  1,906,224    35,112    122,619
      available for issuance thereunder from 1,550,000 to 1,950,000
      shares.
 
 
3.    Approval of amendment to the Company's 1995 Employee Stock
      Purchase Plan to increase the number of shares of Common Stock      8,307,550     97,566    40,067    122,619
      available for issuance thereunder from 150,000 to 250,000 shares.
</TABLE>

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

      Exhibit No.
      -----------

      11.01  Computation of Net Income (Loss) Per Share
 
      27.01  Financial Data Schedule


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

            No reports on Form 8-K were filed during the quarter ended March 31,
1998.


                                 Page 18 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, 1998                       /s/ Robert J. Therrien
- ------------                       -------------------------------
[Date]                             Robert J. Therrien
                                   Chief Executive Officer,
                                   President and Treasurer

May 14, 1998                       /s/ Deborah D. Fox
- ------------                       -------------------------------
[Date]                             Deborah D. Fox
                                   Corporate Controller and
                                   Chief Accounting Officer


                                 Page 19 of 20

<PAGE>
 
                                                                   Exhibit 11.01

                            BROOKS AUTOMATION, INC.

                  Computation of Net Income (Loss) Per Share

                   (in thousands, except per share amounts)

<TABLE>
<CAPTION>
                                                     Six months ended                Three months ended         
                                                         March 31,                       March 31,              
                                                  1998           1997                  1998      1997            
<S>                                              <C>             <C>                 <C>       <C>                  
Net income (loss) applicable to common shares       $ (4,030)     $(1,504)           $(3,800)  $(1,544)          
                                                    --------      -------            -------   -------           
                                                                                                                 
Weighted average shares outstanding:                                                                             
   Common stock (basic share base)                   10, 080        7,600             10,107     7,625           
   Assumed conversion of stock                                                                                   
    options/(1)/                                           -            -                  -         -                
                                                    --------      -------            -------   -------           
      Diluted share base                              10,080        7,600             10,107     7,625           
                                                    ========      =======            =======   =======           
                                                                                                                 
   Net income (loss) per share - Basic              $  (0.40)     $ (0.20)           $ (0.38)  $ (0.20)          
                                                    ========      =======            =======   =======           
                                                                                                                 
   Net income (loss) per share - Diluted            $  (0.40)     $ (0.20)           $ (0.38)  $ (0.20)          
                                                    ========      =======            =======   =======           
</TABLE>

(1)  Excluded from computation due to anti-dilutive effect.

                                 Page 20 of 20

<TABLE> <S> <C>

<PAGE>
 
<ARTICLE> 5
<LEGEND>
THIS SCHEDULE CONTAINS SUMMARY FINANCIAL INFORMATION EXTRACTED FROM THE BROOKS
AUTOMATION, INC. FORM 10-Q FOR THE QUARTER ENDED MARCH 31, 1998 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-30-1998
<PERIOD-START>                             OCT-01-1997
<PERIOD-END>                               MAR-31-1998
<CASH>                                          65,462
<SECURITIES>                                         0
<RECEIVABLES>                                   23,898
<ALLOWANCES>                                     (376)
<INVENTORY>                                     26,659
<CURRENT-ASSETS>                               123,099
<PP&E>                                          31,317
<DEPRECIATION>                                (12,156)
<TOTAL-ASSETS>                                 145,788
<CURRENT-LIABILITIES>                           14,290
<BONDS>                                              0
                                0
                                          0
<COMMON>                                           101
<OTHER-SE>                                     130,317
<TOTAL-LIABILITY-AND-EQUITY>                   145,788
<SALES>                                         44,841
<TOTAL-REVENUES>                                44,841
<CGS>                                           35,560
<TOTAL-COSTS>                                   35,560
<OTHER-EXPENSES>                                17,777
<LOSS-PROVISION>                                     0
<INTEREST-EXPENSE>                             (1,705)
<INCOME-PRETAX>                                (6,791)
<INCOME-TAX>                                   (2,761)
<INCOME-CONTINUING>                            (4,030)
<DISCONTINUED>                                       0
<EXTRAORDINARY>                                      0
<CHANGES>                                            0
<NET-INCOME>                                   (4,030)
<EPS-PRIMARY>                                   (0.40)
<EPS-DILUTED>                                   (0.40)
        

</TABLE>


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