<PAGE>

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                                 UNITED STATES
                       SECURITIES AND EXCHANGE COMMISSION
                             WASHINGTON, D.C. 20549

                                  FORM 10-Q/A
(Mark One)
[X]  QUARTERLY REPORT PURSUANT TO SECTION 13 OR 15(D) OF THE SECURITIES
   EXCHANGE ACT OF 1934.

  For the quarterly period ended June 30, 2000.

                                       or

[_]  TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(D) OF THE SECURITIES
   EXCHANGE ACT OF 1934.

                        Commission File Number: 0-24507

                          PILOT NETWORK SERVICES, INC.
             (Exact name of registrant as specified in its charter)

<TABLE>
 <S>                              <C>
            DELAWARE                                94-3305774
 (State or other jurisdiction of                 (I.R.S. Employer
 incorporation or organization)               Identification Number)
</TABLE>

                          1080 MARINA VILLAGE PARKWAY
                               ALAMEDA, CA 94501
          (Address of principal executive offices, including zip code)

                                 (510) 433-7800
              (Registrant's telephone number, including area code)

   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 [_]

   At June 30, 2000, there were 15,080,927 shares of the Registrant's Common
Stock outstanding.

--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
<PAGE>

                          PILOT NETWORK SERVICES, INC.

                        QUARTERLY REPORT ON FORM 10-Q/A

                                     INDEX

<TABLE>
<CAPTION>
                                                                          Page
                                                                         Number
                                                                         ------
<S>                                                                      <C>
PART I. FINANCIAL INFORMATION

  Item 1. Financial Statements..........................................    4

      Condensed Consolidated Balance Sheets as of March 31, 2000 and
      June 30, 2000 (restated)..........................................    4

      Condensed Consolidated Statements of Operations for the three
      months ended June 30, 1999 and 2000 (restated)....................    5

      Condensed Consolidated Statements of Cash Flows for the three
      months ended June 30, 1999 and 2000 (restated)....................    6

      Notes to Condensed Consolidated Financial Statements..............    7

  Item 2. Management's Discussion and Analysis of Financial Condition
        and Results of Operations (revised).............................    9

  Item 3. Quantitative and Qualitative Disclosures About Market Risk....   17

PART II. OTHER INFORMATION..............................................   17

  Item 4. Exhibits and Reports on Form 8-K..............................   17

SIGNATURES..............................................................   18
</TABLE>

                                       2
<PAGE>

                             EXPLANATORY STATEMENT

   This filing revises the company's financial statements as described below.
During the quarter ended June 30, 2000, the Company recognized $425,000 in
technology access fee revenue. Subsequently, the Company determined that the
$425,000, which related to a transaction with one customer, was not probable
of collection because of the customer's financial condition. Upon further
review of the transaction, it was determined that the customer's financial
condition did not support recognition of revenue at the time of the
transaction. Accordingly, previously reported total revenue for the first
quarter of fiscal 2001 has been revised from $11,537,000 to $11,112,000. The
revision increased the net loss for the first quarter from $5,754,000 to
$6,179,000 and increased the net loss per share from $0.38 to $0.41. As a
result, the accumulated deficit increased from $58,773,000 to $59,198,000.
Other than the restatement, the Company has not revised this quarterly report
to reflect any matters occurring after the end of the June 30, 2000 quarter.
This amended quarterly report is filed solely to reflect this restatement; for
current information about the Company since the close of the quarter ended
June 30, 2000, please see the Company's filings with the Securities and
Exchange Commission since July 1, 2000.

                                       3
<PAGE>

PART I. FINANCIAL INFORMATION

ITEM 1. Financial Statements

                          PILOT NETWORK SERVICES, INC.

                     CONDENSED CONSOLIDATED BALANCE SHEETS
                       (in thousands, except share data)
                                  (unaudited)

<TABLE>
<CAPTION>
                                                            March 31,  June 30,
                                                               2000      2000
                                                            ---------- --------
                                                            (restated)
                          ASSETS
                          ------
<S>                                                         <C>        <C>
Current assets:
  Cash and cash equivalents...............................   $  7,920  $ 19,617
  Short-term investments..................................        898       891
  Trade receivables, less allowance for doubtful accounts
   of $389 and $500 as of March 31, 2000, and June 30,
   2000, respectively.....................................      7,233     8,342
  Prepaid and other current assets........................        843     2,107
                                                             --------  --------
    Total current assets..................................     16,894    30,957
Property and equipment, net...............................     24,624    28,388
Other assets..............................................      1,639     1,050
                                                             --------  --------
                                                             $ 43,157  $ 60,395
                                                             ========  ========
<CAPTION>
LIABILITIES, CONVERTIBLE PREFERRED STOCK AND STOCKHOLDERS'
                          EQUITY
----------------------------------------------------------
<S>                                                         <C>        <C>
Current liabilities:
  Accounts payable........................................   $  5,352  $ 10,420
  Accrued expenses........................................      2,067     2,521
  Line of credit..........................................      4,652     4,293
  Term loan...............................................      3,000     3,000
  Current portion of capital lease obligation.............      2,275     2,380
  Deferred revenue........................................      1,200     1,826
                                                             --------  --------
    Total current liabilities.............................     18,546    24,440
Capital lease obligations, net of current portion.........      3,561     6,700
                                                             --------  --------
    Total liabilities.....................................     22,107    31,140
                                                             --------  --------
Convertible preferred stock, net of related warrant and
 issuance costs, $0.01 par value; 15,000 shares
 authorized; 15,000 shares issued and outstanding as of
 June 30, 2000............................................        --     11,450
                                                             --------  --------
Stockholders' equity:
  Common stock, $0.001 par value; 40,000,000 shares
   authorized; 15,487,063 and 15,531,863 shares issued and
   outstanding as of March 31, 2000, and June 30, 2000,
   respectively...........................................         15        15
  Additional paid-in capital..............................     77,035    79,952
  Accumulated other comprehensive income..................         39        16
  Deferred stock compensation.............................       (326)     (286)
  Accumulated deficit.....................................    (53,019)  (59,198)
  Treasury stock, 450,936 shares of common stock at cost
   as of March 31, 2000 and June 30, 2000, respectively...     (2,694)   (2,694)
                                                             --------  --------
    Total stockholders' equity............................     21,050    17,805
                                                             --------  --------
                                                             $ 43,157  $ 60,395
                                                             ========  ========
</TABLE>

           See accompanying notes to condensed financial statements.

                                       4
<PAGE>

                          PILOT NETWORK SERVICES, INC.

                CONDENSED CONSOLIDATED STATEMENTS OF OPERATIONS
                     (in thousands, except per share data)
                                  (unaudited)

<TABLE>
<CAPTION>
                                                              Three months
                                                             ended June 30,
                                                             ----------------
                                                              1999     2000
                                                             -------  -------
                                                               (restated)
<S>                                                          <C>      <C>
Service revenues............................................ $ 5,816  $11,112
Cost of revenues............................................   6,430    9,690
                                                             -------  -------
Gross margin................................................    (614)   1,422
                                                             -------  -------
Operating expenses:
  Sales and marketing.......................................   2,938    4,234
  Engineering and development...............................     635    1,503
  General and administrative................................     760    1,416
                                                             -------  -------
    Total operating expenses................................   4,333    7,153
                                                             -------  -------
Operating loss..............................................  (4,947)  (5,731)
Interest expense, net.......................................    (250)    (448)
                                                             -------  -------
    Net loss................................................ $(5,197) $(6,179)
                                                             =======  =======
Basic and diluted net loss per common share................. $ (0.38) $ (0.41)
                                                             =======  =======
Weighted average common shares used in computing basic and
 diluted net loss per share.................................  13,557   15,064
                                                             =======  =======
</TABLE>


           See accompanying notes to condensed financial statements.

                                       5
<PAGE>

                          PILOT NETWORK SERVICES, INC.

                CONDENSED CONSOLIDATED STATEMENTS OF CASH FLOWS
                                 (in thousands)
                                  (unaudited)

<TABLE>
<CAPTION>
                                                               Three months
                                                              ended June 30,
                                                              ----------------
                                                               1999     2000
                                                              -------  -------
                                                                (restated)
<S>                                                           <C>      <C>
Cash flows from operating activities:
  Net loss................................................... $(5,197) $(6,179)
  Adjustments to reconcile net loss to net cash used in
   operating activities:
    Foreign currency translation loss........................      (8)     --
    Depreciation and amortization............................   1,599    2,545
    Amortization of deferred compensation....................     193       40
    Amortization of loan fees................................     150      250
    Provision for doubtful accounts..........................      97      111
    Changes in operating assets and liabilities:
    Trade receivables........................................     612   (1,220)
    Prepaid and other assets.................................     139     (925)
    Accounts payable.........................................   1,268    5,068
    Accrued expenses.........................................    (336)     454
    Deferred revenue.........................................    (567)     626
                                                              -------  -------
      Net cash provided by (used in) operating activities....  (2,050)     770
                                                              -------  -------
Cash flows used in investing activities:
  Purchases of property and equipment........................  (4,840)  (2,309)
  Purchases of short-term investments........................     --       (16)
  Proceeds from short-term investments.......................   2,827      --
                                                              -------  -------
      Net cash used in investing activities..................  (2,013)  (2,325)
                                                              -------  -------
Cash flows from financing activities:
  Proceeds from issuance of common stock.....................     387      367
  Proceeds from issuance of convertible preferred stock and
   related warrant, net of issuance costs....................     --    14,000
Payments on working capital line of credit...................  (1,083)    (359)
Principal payments of obligations under capital leases.......    (526)    (756)
                                                              -------  -------
      Net cash provided by (used in) financing activities....  (1,222)  13,252
                                                              -------  -------
Net increase (decrease) in cash and cash equivalents.........  (5,285)  11,697
Cash and cash equivalents, beginning of period...............  10,660    7,920
                                                              -------  -------
Cash and cash equivalents, end of period..................... $ 5,375  $19,617
                                                              =======  =======
Supplemental disclosure of cash flow information:
Cash paid during the period for interest..................... $   385  $   407
                                                              =======  =======
Noncash financing activities:
  Assets acquired under capital lease obligations............ $   493  $ 4,000
                                                              =======  =======
</TABLE>

           See accompanying notes to condensed financial statements.

                                       6
<PAGE>

             NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS

1. Basis of presentation and restatement of June 30, 2000 financial statements

   The consolidated financial statements included herein for Pilot Network
Services, Inc. and subsidiary (the "Company") have been prepared by the
Company, without audit, pursuant to the rules and regulations for Form 10-Q/A
of the Securities and Exchange Commission. In management's opinion, the
interim financial data presented includes all adjustments necessary for a fair
presentation.

   During the quarter ended June 30, 2000, the Company recognized $425,000 in
technology access fee revenue. Subsequently, the Company determined that the
$425,000, which related to a transaction with one customer, was not probable
of collection because of the customer's financial condition. Upon further
review of the transaction, it was determined that the customer's financial
condition did not support recognition of revenue at the time of the
transaction. Accordingly, previously reported total revenue for the first
quarter of fiscal 2001 has been revised from $11,537,000 to $11,112,000. The
revision increased the net loss for the first quarter from $5,754,000 to
$6,179,000 and increased the net loss per share from $0.38 to $0.41. As a
result, the accumulated deficit increased from $58,773,000 to $59,198,000.
Certain information and footnote disclosures normally included in the
financial statements prepared in accordance with generally accepted accounting
principles have been condensed or omitted pursuant to such rules and
regulations. The results of operations for the three months ended June 30,
2000 are not necessarily indicative of the operating results expected for the
entire year. The financial statements included herein should be read in
conjunction with other documents the Company files from time to time with the
Securities and Exchange Commission, including the Company's Annual Report on
Form 10-K for the fiscal year ended March 31, 2000, and its Report on Form 8-K
filed June 28, 2000.

2. Basic and diluted net loss per share

   Basic and diluted loss per share is computed using the weighted average
number of common shares outstanding during the period. The following options
and warrants to acquire shares of common stock were excluded from the
computation of diluted earnings per share because their effects would be anti-
dilutive:

<TABLE>
<CAPTION>
                                    June 30, 1999            June 30, 2000
                               ------------------------ ------------------------
                                            Exercise                 Exercise
                                Shares       Prices      Shares       Prices
                               --------- -------------- --------- --------------
<S>                            <C>       <C>            <C>       <C>
Options....................... 2,457,645 $0.090-$20.063 2,701,579 $0.090-$49.875
Warrants......................   255,374 $0.365-$ 2.000   675,453 $0.365-$25.000
                                         --------------           --------------
                                              2,713,019                3,377,032
                                         ==============           ==============
</TABLE>

   Common shares that would result from the conversion of the Company's
convertible preferred stock are also excluded from the computation of diluted
earnings per share.

3. Recent accounting pronouncements

   In June 1998, the Financial Accounting Standards Board issued Statement of
Financial Accounting Standards (SFAS) No. 133, "Accounting for Derivative
Instruments and Hedging Activities." This statement establishes standards for
accounting for derivative instruments and hedging activities. The Company is
required to adopt SFAS No. 133, as amended by SFAS No. 137, in the first
quarter of fiscal year 2002. The Company does not anticipate that SFAS No. 133
will have a material impact on its financial statements.

   In December 1999, the Securities and Exchange Commission ("SEC") issued
Staff Accounting Bulletin No. 101 SAB 101, "Revenue Recognition in Financial
Statements." SAB 101 summarized the SEC's view in applying generally accepted
accounting principles to revenue recognition. The Company is required to adopt
SAB 101 in the fourth quarter of fiscal 2001. The SEC has recently indicated
it intends to issue further guidance with respect to adoption of specific
issues addressed by SAB 101. Until such time as this additional guidance is

                                       7
<PAGE>

issued, the company is unable to assess the impact, if any, it may have on its
financial position or results of operations.

4. Comprehensive loss

   Total comprehensive loss for the quarter ended June 30,1999 and 2000, was
$5,242,000 and $6,202,000 (restated), respectively.

5. Convertible preferred stock

   In June 2000, the Company sold 15,000 shares of convertible preferred stock
directly to an investor at a price of $1,000 per share. The gross proceeds
were $15.0 million. After transaction fees and costs estimated at $1.0
million, the net proceeds to the Company were approximately $14.0 million. At
the investor's option, the convertible preferred stock may be converted into
shares of common stock at the lower of 125% of the average market price
immediately prior to the transaction, specifically $18.266 per share, or 101%
of the average market price immediately prior to conversion. The convertible
preferred stock pays a dividend of 3% per annum which can be paid in cash or
common stock of the Company, at the Company's option. The convertible
preferred stock matures in two years. The convertible preferred stock may be
redeemed at maturity in either cash or common stock at the option of the
Company or, under certain circumstances, the convertible preferred stock may
be redeemed in cash at the option of the holder prior to maturity. Prior to
maturity, the preferred stock cannot be converted into more than 3,014,199 of
Pilot's outstanding shares of common stock. This maximum number of shares of
common stock upon conversion includes shares of common stock that may be
issued as dividends. At maturity, the convertible preferred stock may be
converted into more than 3,014,199 of the Company's outstanding shares of
common stock only upon prior approval of the Company's shareholders. As
additional consideration, the Company issued a warrant to purchase 256,621
shares of common stock at 120% of the average market price immediately prior
to the transaction, specifically $17.536 per share. The Company calculated a
fair value of the warrant of $2.55 million which amount was capitalized and is
included as a component of additional paid-in capital. The fair value of the
warrant was calculated using the Black-Scholes option pricing using the
following assumptions: dividend yield-none; contractual life-5 years; risk
free interest rate-5.5%; volatility-85%.

                                       8
<PAGE>

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

Special Note Regarding Forward-looking Information

   Forward-looking statements made in this report or in the documents
incorporated by reference herein that are not statements of historical fact
are forward-looking statements within the meaning of Section 27A of the
Securities Act of 1933, as amended (the "Securities Act"), and Section 21E of
the Securities Exchange Act of 1934, as amended (the "Exchange Act"). A number
of risks and uncertainties, including those discussed under the caption "Risk
Factors" below and the documents incorporated by reference herein could affect
such forward-looking statements and could cause actual results to differ
materially from the statements made.

Company Overview

   We provide a wide range of secure Internet services that incorporate high-
bandwidth connectivity and enable secure electronic business over the
Internet. Our services are offered for a fixed monthly fee on an annual
subscription basis and include secure hosting and Internet connectivity
services that enable secure connectivity between a corporate network and the
Internet and secure virtual private networking services that enable remote
users and wide-area networks to securely communicate enterprise-wide and over
the Internet.

   Our Internet services allow our customers to avoid the risks associated
with traditional approaches to Internet security. Customers can also avoid
extensive costs associated with implementing an in-house solution, including
set-up costs for security and systems design, hardware, software, Internet
access services provided by Internet Service Providers, as well as labor and
ongoing costs for telecommunications, staffing, maintenance and upgrades.

   The foundation of our solution is our Heuristic Defense Infrastructure, an
Internet security approach we developed to continuously manage and monitor
Internet traffic to and from customer networks in order to respond in real-
time to security threats. The Heuristic Defense Infrastructure consists of a
multi-layered defensive architecture and around-the-clock security operations
delivered through geographically dispersed customer centers called Network
Security Centers that are connected to customer networks via dedicated, high-
speed data lines. Our solution aggregates the experience gained from
protecting each customer against attacks and leverages such experience for the
collective benefit of all customers. The Heuristic Defense Infrastructure
offers benefits over other security approaches by eliminating single points of
failure, enhancing attack detection, delivering real-time defenses, and
adapting continuously to external conditions. Customers can concentrate on
their core business because the secure infrastructure for electronic commerce
is provided by Pilot.

Results of Operations

 Three Months ended June 30, 1999 and 2000

   Service revenues. Service revenues consist of monthly fees for
installation, recurring services and, to a lesser extent, one-time fees for
management and consulting services such as security audits. We had service
revenues of $11.1 million in the quarter ended June 30, 2000, an increase of
91% from $5.8 million in the same period last year. The growth in our service
revenues over this period resulted primarily from an increase in the number of
customers and to a lesser extent from increases in the number of service
offerings and in service revenues per customer.

   Technology access revenues. We generate technology access revenues when we
sell access to our technologies and methodologies to enable other companies to
sell or deliver our Heuristic Defense Infrastructure services. Technology
access revenue is recognized upon a signed agreement and delivery of the
technology unless there are related services that are considered to be
essential to the utility of the technology. We did not have any technology
access revenues in the same period last year. We have not had any technology
access revenues in Fiscal 2001.

                                       9
<PAGE>

                            PILOT NETWORK SERVICES

       NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS--(Continued)


   Cost of revenues. Our cost of revenues is comprised primarily of our cost
for network bandwidth, equipment costs and salaries and benefits for our
customer service and operations personnel, including our network engineers,
backbone engineers, network management and systems and installation personnel.
Network bandwidth consists of costs for access to and use of third-party
communications networks. Cost of revenues increased from $6.4 million, or 111%
of revenue, in fiscal 2000 to $9.7 million in fiscal 2001, or 87% of revenue.
The increase in cost of revenues in absolute dollars was due to increased
costs associated with the build-out and operation of our Network Security
Centers, including increased costs for network bandwidth, equipment costs and
salaries and benefits for our customer service, engineering and operations
personnel. The reduction in cost of revenues as a percentage of revenues came
from better capacity utilization and, to a lesser extent, higher margins on
certain services. We expect the cost of revenues to increase on an absolute
basis at least through fiscal 2001 as a result of expected customer expansion
in our Network Security Centers. As of June 30, 2000, we employed 114 people
in this area, up from 77 as of June 30, 1999.

   Sales and marketing. Our sales and marketing expenses are comprised
primarily of salaries, commissions and benefits for our sales and marketing
personnel and marketing expenses for items such as tradeshows and product
literature. Our sales and marketing expenses increased from $2.9 million in
fiscal 2000 to $4.2 million in fiscal 2001. The increase was primarily the
result of hiring additional sales and marketing personnel in connection with
our expansion of our operations. We expect that sales and marketing expenses
will continue to increase in absolute dollars. As of June 30, 2000, we
employed 68 people in this area, up from 42 as of June 30, 1999.

   Engineering and development. Our engineering and development expenses are
comprised primarily of salaries and benefits for our engineering and
development personnel and fees paid to consultants. These individuals work on
researching changes in security threats and technology, development of new
processes and methodologies, and integration of best-of-breed components into
our secure operating environment. Our engineering and development expenses
increased from $635,000 in fiscal 2000 to $1.5 million in fiscal 2001. Our
security and services development expenses grew from fiscal 2000 to fiscal
2001 primarily due to the addition of engineering personnel required to create
and enhance our expanded service offerings. We expect that engineering and
development expenses will continue to increase in absolute dollars as we make
additional investments in developing our secure electronic commerce services.
As of June 30, 2000, we employed 39 people in this area, up from 18 as of June
30, 1999.

   General and administrative. Our general and administrative expenses are
comprised primarily of salaries and benefits for our general management and
administrative personnel as well as fees paid for professional services. Our
general and administrative expenses increased from $760,000 in fiscal 2000 to
$1.4 million in fiscal 2001. The increase was primarily the result of
increased recruiting, travel as well as costs for consultants and professional
services providers. Over the course of fiscal 2001, we expect to see some
increase in absolute dollars to the extent we expand our operations. As of
June 30, 2000, we employed 16 people in this area, compared to 17 as of June
30, 1999.

   Interest expense, net. We had an increase in net interest expense from
$250,000 in fiscal 2000 to $448,000 in fiscal 2001. The increase in net
interest expense was due to a reduction in interest income due to lower
average cash balances as well as an increase in the amortization of loan fees
associated with warrants issued in connection with debt financing.

Liquidity and Capital Resources

   As of June 30, 2000, we had $9.1 million in outstanding equipment lease
facilities that financed equipment purchases bearing interest rates of
approximately 15%. Borrowings under the facilities are repayable in monthly
installments of principal and interest over periods ranging from 36 to 48
months and are secured by a lien on the

                                      10
<PAGE>

                            PILOT NETWORK SERVICES

       NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS--(Continued)

financed equipment. As of June 30, 2000, we had fully utilized these lease
facilities. We intend to secure additional equipment lease facilities to fund
growth in capital equipment purchases.

   Cash used in operating activities was $2.0 million for the quarter ended
June 30, 1999, while our operating activities provided $770,000 in cash in the
quarter ended June 30, 2000. The primary source of cash in operating
activities for fiscal 2001 was the expansion of accounts payable associated
with equipment purchased for customer use. In the quarter ended June 30, 2000,
the primary use of cash in investing activities was for purchases of capital
equipment and leasehold improvements to support increased capacity and
services provided to customers. In the quarter ended June 30, 2000, the major
source of cash provided by financing activities was from the issuance of
preferred stock which provided $14.0 million, net of issuance costs.

   In June 2000, we sold 15,000 shares of convertible preferred stock directly
to an investor at a price of $1,000 per share. The gross proceeds were $15.0
million. After transaction fees and costs estimated at $1.0 million, our net
proceeds were approximately $14.0 million. At the investor's option, the
convertible preferred stock may be converted into shares of common stock at
the lower of 125% of the average market price immediately prior to the
transaction, specifically $18.266 per share, or 101% of the average market
price immediately prior to conversion. The convertible preferred stock pays a
dividend of 3% per annum which can be paid in cash or in shares of our common
stock at our option. The convertible preferred stock matures in two years. The
convertible preferred stock may be redeemed at maturity in either cash or
common stock at our option or, under certain circumstances, the convertible
preferred stock may be redeemed in cash at the option of the holder prior to
maturity. Prior to maturity, the preferred stock cannot be converted into more
than 3,014,199 of our outstanding shares of common stock. This maximum number
of shares of common stock upon conversion includes shares of common stock that
may be issued as dividends. At maturity, the convertible preferred stock may
be converted into more than 3,014,199 of our outstanding shares of common
stock only upon prior approval of our shareholders. As additional
consideration, we issued a warrant to purchase 256,621 shares of common stock
at 120% of the average market price immediately prior to the transaction,
specifically $17.536 per share. We calculated a fair value of the warrant of
$2.55 million which amount was capitalized and is included as a component of
additional paid-in capital. The fair value of the warrant was calculated using
the Black-Scholes option pricing using the following assumptions: dividend
yield-none; contractual life-5 years; risk free interest rate-5.5%;
volatility-85%.

   In the quarter ended June 30, 2000, we received funding of an additional $4
million in capital equipment lease facilities from two lessors on terms
substantially similar to previously existing equipment leases.

   On December 28, 1999, we entered into an agreement with Primus
Telecommunications Group, Inc. that included the purchase by Primus of 919,540
shares of our common stock for $16.3125 per share for a total purchase price
of $15.0 million. The $16.3125 per share price was the closing price of our
common stock on December 27, 1999. Additionally, we issued to Primus a warrant
to purchase 200,000 shares of common stock at $25 per share. The warrant is
exercisable for three years following its issuance. On January 5, 2000, we
received the full amount of the purchase price in cash, and the shares and
warrant were released to Primus.

   On November 10, 1999, we completed an $8.0 million credit facility with a
financial institution consisting of a $5.0 million revolving line of credit
and a $3.0 million term loan. The line of credit is renewable in successive
one-year terms and the term loan matures one year from the effective date.
Both loans currently bear interest of 11% per annum. Additionally, the term
loan must be pre-paid, without penalty, if the we raise more than $15 million
in equity. For each of our two subsequent $15 million equity transactions, the
lender waived the pre-payment provision. The credit facility is secured by our
general assets. As additional consideration, we issued a warrant to purchase
121,212 shares of common stock at $8.25 per share. We calculated a fair value
of the warrants of $1.0 million which amount was capitalized and is being
amortized over the expected terms of the loans. At June 30, 2000, $707,000 of
the revolving line of credit remained available.


                                      11
<PAGE>

                            PILOT NETWORK SERVICES

       NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS--(Continued)

   On October 19, 1998, we announced an open-market common stock repurchase
program under which we would repurchase up to 1.5 million shares of our Common
Stock. As of June 30, 2000, 450,936 shares had been repurchased, at an
aggregate cost of approximately $2.7 million. We do not anticipate making any
additional repurchases under this program.

   If we are unable to generate sufficient cash flow from operations, or are
unable to obtain additional equity or equipment lease financing, we may be
required to sell assets, scale down our operations and expansion plans,
refinance all or a portion of our existing indebtedness or obtain other
sources of financing earlier than planned, any of which could have a material
adverse impact on our financial condition and ability to continue operations.
Our working capital requirements depend upon several factors, including:

  .  plans to incur substantial additional capital expenditures primarily for
     additions to and expansions of our Network Security Centers;

  .  developing, acquiring or licensing new applications and technologies;
     and

  .  the level of resources that we devote to our sales and marketing
     activities.

   In addition to the $30.0 million in aggregate equity investment in June
2000 and December 1999 and $8.0 million credit facility completed in November
1999, we believe that we will require additional equity financing. However, we
may not be successful in generating sufficient levels of cash from operations
or in obtaining financing on commercially reasonable terms, or at all.

Risk Factors

   You should carefully consider the following and other information contained
in this Form 10-Q/A before making an investment decision. If any of the events
or circumstances described in the following risk factors actually occurs, our
business, financial condition, or results of operations could be materially
harmed. In that case, the trading price of our common stock could decline, and
you may lose all or part of your investment.

   You should consider carefully whether an investment in Pilot is an
appropriate investment for you. We do not intend to issue any dividends in the
foreseeable future, so the only purpose of investment in Pilot's shares is in
expectation of a potential increase in the shares' value. Because of the risks
mentioned here, and other risks not mentioned specifically here, it is
possible that Pilot's shares will decline in value in the future. If you
cannot afford to lose the full value of your investment, in either the short
or long term, purchasing Pilot shares is not appropriate for you.

   If our existing financing sources or other sources of financing are not
available, we may not have sufficient cash to satisfy our working capital
requirements.

   If we are unable to generate sufficient cash flow from operations, or are
unable to obtain additional equity or equipment lease financing, we may be
required to sell assets, scale down our operations and expansion plans,
refinance all or a portion of our existing indebtedness or obtain other
sources of financing earlier than planned, any of which could have a material
adverse impact on our financial condition and ability to continue operations.
Our working capital requirements depend upon several factors, including:

  .  plans to incur substantial additional capital expenditures primarily for
     additions to and expansions of our Network Security Centers;

  .  developing, acquiring or licensing new applications and technologies;
     and

  .  the level of resources that we devote to our sales and marketing
     activities.

                                      12
<PAGE>

                            PILOT NETWORK SERVICES

       NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS--(Continued)


   In addition to the $30.0 million in aggregate equity investment in June
2000 and December 1999 and $8.0 million credit facility completed in November
1999, we believe that we will require additional equity financing. However, we
may not be successful in generating sufficient levels of cash from operations
or in obtaining financing on commercially reasonable terms, or at all.

We are experiencing operating losses and may not achieve profitability.

   We have experienced operating losses and negative cash flows from
operations in each quarterly and annual period since we began operations in
1993 and expect to continue to experience losses for the foreseeable future.
As of June 30, 2000, we had an accumulated deficit of approximately $59.2
million. We experienced an increase in net loss in fiscal 1998, 1999 and 2000.
The revenue and income potential of our business and market is unproven, and
our limited operating history makes an evaluation of our prospects difficult.

   Failure of our services to achieve market acceptance would have a material
adverse effect on our revenues and results of operations. We cannot assure you
that we will ever achieve profitability.

Our stock price and our quarterly operating results are highly volatile, which
may impair our ability to raise money and cause our investors to lose money.

   Our results of operations may not meet the expectations of securities
analysts or investors, which could cause the market price of our common stock
to decline. For example, a relatively large portion of our expenditures are
fixed in the short-term, and our success is substantially dependent on the
continued growth in our customer base and the retention of our customers for
sufficient periods to provide returns on our investment. We derive revenue
from our customers primarily through initial setup fees and ongoing monthly
service charges. For each new customer, we incur costs in anticipation of the
customer's decision to use our services and in advance of the receipt of
sufficient revenues to repay these costs and provide a return on our
investment. Our customers may decide not to maintain or renew their
commitments to use our services.

   In addition, we typically experience a lengthy sales cycle for our
services, particularly given the importance to customers of adequately
securing Internet connectivity for electronic commerce and the need to educate
them regarding the requirements for effective network security. Changes in the
rate of growth in our customer base, customer renewal rates and the sales
cycle for our services, have caused, and we expect will continue to cause for
the foreseeable future, significant fluctuations in our results of operations
on a quarterly and an annual basis.

The conversion of our Series A convertible preferred stock may have a dilutive
impact on our security holders.

   The number of shares of common stock that may ultimately be issued upon
conversion of shares of our Series A preferred stock is presently
undeterminable because the conversion price of the Series A preferred stock is
based in part on the price of the common stock at the time of the conversion.
The conversion price of the Series A preferred stock is initially fixed at
$18.266 per share. The conversion of all of the 15,000 shares of Series A
preferred stock outstanding would result in the issuance of approximately
821,198 shares of common stock. This represents about 5.5% of our outstanding
common stock based on the number of shares outstanding as of June 28, 2000.

   The terms of the Series A preferred stock provide that the number of shares
issuable upon conversion of the Series A preferred stock will increase as the
price of our common stock drops. For example, if the price of our common stock
declines and the conversion price falls to $10.00 per share, assuming all
15,000 shares of Series A preferred stock were converted, we would issue
approximately 1,500,000 shares of common stock. This would represent
approximately 9.9% of our outstanding common stock based on the number of
shares outstanding as of June 28, 2000. Any increased issuance of our common
stock resulting from a lowered conversion price could

                                      13
<PAGE>

                            PILOT NETWORK SERVICES

       NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS--(Continued)

place additional downward pressure on the price of our common stock generally.
A downward movement in the price of our common stock could result in the loss
of substantially all of your investment.

We rely on third parties to deliver our Heuristic Defense Infrastructure and
generate revenues.

   In fiscal 2000, we sold technology and consulting services to enable two
telecommunications carriers to embed our Heuristic Defense Infrastructure in
several of their security centers. As part of the relationship with these
carriers, we will receive a recurring fee based on the total revenue generated
through the Heuristic Defense Infrastructure. In exchange, we will provide
security monitoring for network traffic using the Heuristic Defense
Infrastructure. While the telecommunications carriers have committed capital
and operational resources to these projects, as of July 24, 2000, none of
these third-party centers are operational. There are no guarantees that these
centers will ever be operational or that they will generate material revenues
or earnings for us. To the extent one or both of the carriers elect not to
proceed with using the Heuristic Defense Infrastructure or if the
implementation is materially delayed, there could be a material adverse effect
on our ability to expand operations and improve our operating results and
financial condition.

We may not be able to prevent unauthorized access to our customers' networks.

   Despite our focus on Internet security, we may not be able to stop
unauthorized attempts, whether made unintentionally or by computer
"attackers," to gain access to or disrupt the network operations of our
customers. Accordingly, our success is substantially dependent on the
continued confidence of our current and potential customers that we provide
superior network security protection. Any failure by us to stop unauthorized
access from the Internet or disruptions to related Internet operations of our
customers could materially harm such customers and us.

   Although we generally limit warranties and liabilities relating to security
in our customer contracts, our customers may seek to hold us responsible for
any losses suffered as a result of unauthorized access to customers' network
systems from the Internet. This could result in liability to us, which could
have a material adverse effect upon our business. Moreover, computer attackers
from the Internet could infiltrate our network and sabotage our network or
services by creating bugs or viruses. Any adverse publicity resulting from
unauthorized access could deter future customers from using our services and
could cause current customers to cease using our services, which could have a
material adverse effect upon our business.

We may not be able to effectively manage our growth.

   Any inability on our part to manage effectively our expansion, including
any disruption of service to current customers, may have a material adverse
effect upon our business. Our current plans are to expand domestically and
internationally by adding, or partnering with third parties that add, Network
Security Centers in new locations and expanding Network Security Centers in
existing locations. This expansion will require us or our partners to expend
substantial resources for leases and improvements of facilities, purchases of
equipment, implementation of multiple telecommunications connections and
hiring of network, administrative, customer support, and sales and marketing
personnel. Furthermore, it may cause the interruption of service to current
customers.

   In addition, we have recently hired large numbers of new employees. This
growth has placed, and may continue to place, a significant strain on our
financial, management, operational and other resources.

                                      14
<PAGE>

                            PILOT NETWORK SERVICES

       NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS--(Continued)


The market we serve is highly competitive and we may lose market share to
current or future competitors.

   We may not have the resources or expertise to compete successfully in the
market we serve. The market we serve is new, rapidly evolving, highly
competitive and largely undefined. There are few barriers to entry, and we
expect that we will face increasing competition from existing competitors and
new market entrants in the future.

   We compete with a broad range of products and services. Many of our
competitors have substantially greater financial, technical and marketing
resources, larger customer bases, longer operating histories, greater name
recognition and more established relationships in the industry than we do. As
a result, certain of these competitors may be able to develop and expand their
network infrastructures and service offerings more quickly, adapt to new or
emerging technologies and changes in customer requirements more quickly, take
advantage of acquisition and other opportunities more readily, devote greater
resources to the marketing and sale of their products and adopt more
aggressive pricing policies than us.

   In addition, we believe that the businesses with which we compete are
likely to encounter consolidation in the near future, which could result in
increased price and other competition that could have a material adverse
effect on our ability to compete in our market.

If our systems fail, our business will suffer.

   Despite existing and planned precautions by us, the occurrence of a natural
disaster or other unanticipated problems at one or more of our Network
Security Centers could result in interruptions in the services we provide. Our
success depends on the excellence of security protection and uninterrupted
operation of our network infrastructure. Any damage to or failure of our
systems or those of our service providers could result in reductions in, or
terminations of, services supplied to our customers. These reductions or
terminations in service could materially and adversely impact our customers,
which could cause our customers to elect not to use our services.

The expansion of our international operations exposes us to risks.

   A key component of our long-term strategy is to expand into international
markets. If the revenue we generate from any international Network Security
Center is not adequate to offset the expense of establishing and maintaining
any such international operation, our financial condition could be materially
adversely affected.

If our growth exceeds our capacity to transmit data, our business will suffer.

   If we fail to achieve or maintain high capacity data transmission, customer
demand for our services could decline significantly. We must continue to
expand and adapt our network infrastructure as the number of customers and the
amount of information they wish to transmit increases, and as customer
requirements change. The expansion and adaptation of our telecommunications
infrastructure will require substantial financial, operational and management
resources. Because the deployment of our services to date has been limited,
the ability of our network to connect and manage a substantially larger number
of customers at high transmission speeds is as yet unknown and our network's
ability to operate with higher customer levels while maintaining superior
performance is unproven, we may not be able to expand or adapt our
telecommunications infrastructure to meet additional demand or our customers'
changing requirements.

We depend on third party network infrastructure providers to deliver our
services.

   Our business relies on Internet exchange points, or IXPs, to transmit our
customers' traffic to and from the Internet. If the carriers that operate
these IXPs discontinue their support of the peering points or refuse to offer

                                      15
<PAGE>

                            PILOT NETWORK SERVICES

       NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS--(Continued)

services to us and no alternative providers emerge, or such alternative
providers increase the cost of utilizing the IXPs, our ability to transmit
network traffic will be significantly constrained. Our success depends upon
these Internet infrastructure providers.

   In addition, we rely on a number of private peering interconnections (i.e.,
arrangements among access providers to carry traffic of each other) to deliver
our services. If we are unable to access alternative networks on a cost-
effective basis to distribute our customers' content or pass through any
additional costs of utilizing these networks to our customers, our business
will be materially harmed.

Our ability to deliver our services will suffer if we are unable to obtain
components available in limited quantities or from single source.

   If we fail to obtain hardware or software components that we require on a
timely basis and at an acceptable cost, our ability to provide our services
will suffer. We are dependent on other companies to supply certain key
components of our telecommunications infrastructure and system and network
management solutions that, in the quantities and quality demanded by us, are
available only from sole or limited sources.

   We also intend to develop alternative distribution and lead generation
channel partners for our services, such as systems integration firms and
bandwidth providers. If we fail to develop these channel partners, our ability
to generate increased revenues will be materially and adversely affected.

If we are not able to enhance our services to adapt to rapid technological
change, our services may not achieve market acceptance.

   Our success depends, in part, on our ability to offer services that
incorporate leading technology, address the increasingly sophisticated and
varied needs of our current and prospective customers and respond to
technological advances and emerging industry standards and practices on a
timely and cost-effective basis. The market for our services is characterized
by rapidly changing and unproven technology, evolving industry standards,
changes in customer needs, emerging competition and frequent new service
introductions. Future advances in technology may not be beneficial to, or
compatible with, our business or we may not be able to incorporate such
advances on a cost-effective and timely basis into our business. We believe
that our ability to compete successfully is also dependent upon the continued
compatibility and interoperability of our services with products, services and
architectures offered by various vendors as part of our services. These
products may not be compatible with our infrastructure or these products may
not adequately address changing customer needs. In addition, products,
services or technologies developed by others may render our services
uncompetitive or obsolete, which would materially harm our business.

If we are not able to attract and retain qualified personnel, our business
will not be able to grow.

   Our success depends in significant part upon the continued services of our
key technical, sales and senior management personnel, including our President
and Chief Executive Officer, Marketta Silvera, and our Chief Technology
Officer, Thomas Wadlow. Any officer or employee of ours can terminate his or
her relationship with us at any time. The loss of the services of one or more
of our key employees or our failure to attract additional qualified personnel
could have a material adverse effect on our business.

The law governing the liability of on-line service providers is unsettled and
exposes us to risks.

   The law relating to the liability of on-line service companies such as
Pilot and Internet access providers for information carried on or disseminated
through their networks is currently unsettled. It is possible that claims
could be made against us under both United States and foreign law for
defamation, negligence, copyright or

                                      16
<PAGE>

                            PILOT NETWORK SERVICES

       NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS--(Continued)

trademark infringement, or other theories based on the nature and content of
the materials disseminated through our networks. The imposition of liability
upon us for information carried on or disseminated through our systems could
require us to implement measures to reduce our exposure to such liability,
which may require the expenditure of substantial resources, or to discontinue
certain service or product offerings.

Our proprietary rights may be inadequately protected and infringement claims
could harm our competitive position.

   We rely on a combination of copyright, trademark, patent, service mark and
trade secret laws and contractual restrictions to establish and protect the
proprietary rights in technology underlying our services. We may fail to
obtain patents or trademarks from currently pending or any future
applications, and any patents or trademarks that may be issued or granted may
not be sufficient in scope or strength to provide meaningful protection or any
commercial advantage to us. In addition, the laws of certain foreign countries
may not protect our products, services or intellectual property rights to the
same extent as do the laws of the United States.

   The contractual arrangements and other steps we take to protect our
intellectual property may not prove sufficient to prevent infringement of or
misappropriation of our technology or may not deter independent third-party
development of similar technologies. Any such infringement or
misappropriation, should it occur, could have a material adverse effect on our
ability to deliver our services.

   To date, we have not been notified that our products infringe the
proprietary rights of third parties, but we cannot assure you that third
parties will not claim infringement or indemnification by us with respect to
current or future products. Any such claim, whether meritorious or not, is
likely to be time-consuming, result in costly litigation, cause product
installation delays, prevent us from using important technologies or methods,
subject us to substantial damages, or require us to enter into royalty or
licensing agreements. As a result, any such claim could have a material
adverse effect upon our business.

ITEM 3. Quantitative and Qualitative Disclosures about Market Risk.

   We have limited exposure to financial market risks, including changes in
interest rates. The fair value of our investment portfolio or related income
would not be significantly impacted by a 100 basis point increase or decrease
in interest rates due mainly to the short-term nature of the major portion of
our investment portfolio. An increase or decrease in interest rates would not
significantly increase or decrease interest expense on debt obligations due to
the fixed nature of our debt obligations. Our foreign operations are limited
in scope and thus we are not materially exposed to foreign currency
fluctuations.

PART II. OTHER INFORMATION.

ITEM 4. Exhibits and Reports on Form 8-K

   A. Exhibits

<TABLE>
<CAPTION>
       Exhibit
       Number   Description of Exhibit
       -------  ----------------------
       <C>     <S>
       27.1    Financial Data Schedule.
</TABLE>

   B. Reports on Form 8-K

   On June 30, 2000, we filed a Report on Form 8-K with the Securities and
Exchange Commission describing our sale of Series A convertible preferred
stock to Marshall Capital Management, Inc.

                                      17
<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.

                                                   /s/ Donald Marsee
                                          By: _________________________________
                                                       Donald Marsee
                                                 Interim Financial Officer

November 8, 2000

                                       18