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<SEC-DOCUMENT>0001206774-09-001164.txt : 20090605
<SEC-HEADER>0001206774-09-001164.hdr.sgml : 20090605
<ACCEPTANCE-DATETIME>20090605161633
ACCESSION NUMBER:		0001206774-09-001164
CONFORMED SUBMISSION TYPE:	10-K/A
PUBLIC DOCUMENT COUNT:		3
CONFORMED PERIOD OF REPORT:	20080930
FILED AS OF DATE:		20090605
DATE AS OF CHANGE:		20090605

FILER:

	COMPANY DATA:	
		COMPANY CONFORMED NAME:			AMTECH SYSTEMS INC
		CENTRAL INDEX KEY:			0000720500
		STANDARD INDUSTRIAL CLASSIFICATION:	SPECIAL INDUSTRY MACHINERY, NEC [3559]
		IRS NUMBER:				860411215
		STATE OF INCORPORATION:			AZ
		FISCAL YEAR END:			0930

	FILING VALUES:
		FORM TYPE:		10-K/A
		SEC ACT:		1934 Act
		SEC FILE NUMBER:	000-11412
		FILM NUMBER:		09877318

	BUSINESS ADDRESS:	
		STREET 1:		131 S CLARK DR
		CITY:			TEMPE
		STATE:			AZ
		ZIP:			85281
		BUSINESS PHONE:		6029675146

	MAIL ADDRESS:	
		STREET 1:		131 SOUTH CLARK DRIVE
		CITY:			TEMPE
		STATE:			AZ
		ZIP:			85281

	FORMER COMPANY:	
		FORMER CONFORMED NAME:	QUARTZ ENGINEERING & MATERIALS INC
		DATE OF NAME CHANGE:	19870715
</SEC-HEADER>
<DOCUMENT>
<TYPE>10-K/A
<SEQUENCE>1
<FILENAME>amtech_10ka.htm
<DESCRIPTION>AMENDMENT TO ANNUAL REPORT
<TEXT>

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<P align=center><B><FONT face=serif>UNITED STATES SECURITIES AND EXCHANGE
COMMISSION<BR>WASHINGTON, D.C. 20549 <BR>___________<BR>&nbsp;<BR>FORM
10-K/A<BR></FONT></B><B><FONT face=serif>Amendment No.
1<BR>___________</FONT></B><B><FONT face=serif size=2>&nbsp;</FONT></B></P>
<TABLE cellSpacing=0 cellPadding=0 width="100%" border=0>

  <TR>
    <TD vAlign=top noWrap align=center width="1%">
      <P align=center><FONT face=serif size=2>(Mark One)</FONT></P></TD>
    <TD vAlign=top width="1%">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>
    <TD vAlign=top width="97%"></TD></TR>
  <TR>
    <TD vAlign=top noWrap align=center width="1%">
      <P align=center><B><FONT face=serif size=2>[X]</FONT></B></P></TD>
    <TD vAlign=top width="1%"></TD>
    <TD style="BORDER-BOTTOM: #ffffff 6pt solid" vAlign=top width="97%">
      <P align=justify><B><FONT face=serif size=2>ANNUAL REPORT PURSUANT TO
      SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF
    1934</FONT></B></P></TD></TR>
  <TR>
    <TD vAlign=top noWrap align=center width="1%"></TD>
    <TD vAlign=top width="1%"></TD>
    <TD style="BORDER-BOTTOM: #ffffff 6pt solid" vAlign=top width="97%">
      <P align=justify><B><FONT face=serif size=2>For the fiscal year ended:
      September 30, 2008</FONT></B></P></TD></TR>
  <TR>
    <TD vAlign=top noWrap align=center width="1%"></TD>
    <TD vAlign=top width="1%"></TD>
    <TD style="BORDER-BOTTOM: #ffffff 6pt solid" vAlign=top align=center width="97%">
      <P align=center><FONT face=serif size=2>OR </FONT></P></TD></TR>
  <TR>
    <TD vAlign=top noWrap align=center width="1%">
      <P align=center><B><FONT face=serif size=2>[&nbsp;&nbsp;
    ]</FONT></B></P></TD>
    <TD vAlign=top width="1%"></TD>
    <TD style="BORDER-BOTTOM: #ffffff 6pt solid" vAlign=top width="97%">
      <P align=justify><B><FONT face=serif size=2>TRANSITION REPORT PURSUANT TO
      SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF
    1934</FONT></B></P></TD></TR>
  <TR>
    <TD vAlign=top noWrap align=center width="1%"></TD>
    <TD vAlign=top width="1%"></TD>
    <TD vAlign=top width="97%"><STRONG><FONT size=2>For the transition period
      from ________________
  to&nbsp;________________</FONT></STRONG></TD></TR></TABLE>
<P align=center><B><FONT face=serif>Commission File Number:
</FONT></B><B><U><FONT face=serif>0-11412</FONT></U></B><B><FONT face=serif>
</FONT></B></P>
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    <TD style="BORDER-BOTTOM: #000000 2pt double" noWrap align=left width="99%" colSpan=2>
      <P align=center><B><FONT face=serif size=5>AMTECH SYSTEMS, INC.
      </FONT></B></P></TD></TR>
  <TR>
    <TD noWrap align=center width="99%" colSpan=2>
      <P align=center><FONT face=serif size=2>(Exact name of registrant as
      specified in its charter)</FONT></P></TD></TR>
  <TR>
    <TD noWrap align=left width="49%">&nbsp;</TD>
    <TD noWrap align=center width="50%">&nbsp;</TD></TR>
  <TR vAlign=bottom>
    <TD style="BORDER-BOTTOM: #000000 2pt double" noWrap align=center width="49%"><B><FONT face=serif size=2>Arizona</FONT></B> </TD>
    <TD style="BORDER-BOTTOM: #000000 2pt double" noWrap align=center width="50%"><B><FONT face=serif size=2>86-0411215</FONT></B> </TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=center width="49%"><FONT face=serif size=2>(State or
      other jurisdiction of<BR>incorporation or organization)</FONT></TD>
    <TD noWrap align=center width="50%"><FONT face=serif size=2>(I.R.S.
      Employer<BR>Identification No.)</FONT></TD></TR>
  <TR>
    <TD width="99%" colSpan=2>&nbsp; </TD></TR>
  <TR vAlign=bottom>
    <TD style="BORDER-BOTTOM: #000000 2pt double" noWrap align=center width="49%"><B><FONT face=serif size=2>131 South Clark Drive, Tempe,
      Arizona</FONT></B> </TD>
    <TD style="BORDER-BOTTOM: #000000 2pt double" noWrap align=center width="50%"><B><FONT face=serif size=2>85281</FONT></B> </TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=center width="49%"><FONT face=serif size=2>(Address of
      principal executive offices)</FONT></TD>
    <TD noWrap align=center width="50%"><FONT face=serif size=2>(Zip
      Code)</FONT></TD></TR>
  <TR>
    <TD noWrap align=center width="49%">&nbsp;</TD>
    <TD noWrap align=center width="50%"></TD></TR>
  <TR>
    <TD noWrap align=center width="99%" colSpan=2>
      <P align=center><FONT face=serif size=2>Registrant&#146;s telephone number,
      including area code: </FONT><B><U><FONT face=serif size=2>480-967-5146</FONT></U></B><FONT face=serif size=2></FONT></P></TD></TR>
  <TR>
    <TD noWrap align=center width="99%" colSpan=2>&nbsp;</TD></TR>
  <TR>
    <TD noWrap align=center width="99%" colSpan=2>
      <P align=center><FONT face=serif size=2>Securities registered pursuant to
      Section 12(b) of the Act: </FONT><B><U><FONT face=serif size=2>None</FONT></U></B><B><FONT face=serif size=2></FONT></B></P></TD></TR>
  <TR>
    <TD noWrap align=center width="99%" colSpan=2>&nbsp;</TD></TR>
  <TR>
    <TD noWrap align=center width="99%" colSpan=2>
      <P align=center><FONT face=serif size=2>Securities registered pursuant to
      Section 12(g) of the Act: </FONT></P></TD></TR>
  <TR>
    <TD noWrap align=center width="99%" colSpan=2>&nbsp;</TD></TR>
  <TR>
    <TD style="BORDER-BOTTOM: #000000 2pt double" vAlign=top noWrap align=center width="99%" colSpan=2>
      <P align=center><B><FONT face=serif size=2>Common Stock, $0.01 Par Value
      </FONT></B></P></TD></TR>
  <TR>
    <TD noWrap align=center width="99%" colSpan=2>
      <P align=center><FONT face=serif size=2>(Title of Class)
  </FONT></P></TD></TR></TABLE><BR>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>Indicate
by check mark if the registrant is a well-known seasoned issuer, as defined in
Rule 405 of the Securities Act. Yes [&nbsp;&nbsp; ] No [X] </FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>Indicate by check mark if the
registrant is not required to file reports pursuant to Section 13 or 15(d) of
the Act. Yes [&nbsp;&nbsp; ] No [X]</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>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. [X] Yes
[&nbsp;&nbsp; ] No </FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>Indicate by check mark if disclosure
of delinquent filers pursuant to Item 405 of Regulation S-K (&#167; 229.405) is not
contained herein, and will not be contained, to the best of registrant&#146;s
knowledge in definitive proxy or information statements incorporated by
reference in Part III of this Form 10-K or any amendment to this Form 10-K.
[X]</FONT></P>
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<PAGE>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>Indicate
by check mark whether the registrant is a large accelerated filer, an
accelerated filer, a non-accelerated filer, or a smaller reporting company. See
definition of &#147;large accelerated filer,&#148; &#147;accelerated filer&#148; and &#147;smaller
reporting company&#148; in Rule 12b-2 of the Exchange Act. (Check one): </FONT></P>
<DIV align=center>
<TABLE cellSpacing=0 cellPadding=0 width="80%" border=0>

  <TR>
    <TD width="50%"><FONT size=2>Large accelerated filer [&nbsp;&nbsp;
      ]&nbsp;</FONT><FONT size=3>&nbsp;</FONT></TD>
    <TD width="50%"><FONT size=2>Accelerated filer [X]&nbsp;</FONT><FONT size=3>&nbsp;</FONT></TD></TR>
  <TR>
    <TD width="50%"><FONT size=2>Non-accelerated filer [&nbsp;&nbsp;
      ]&nbsp;</FONT><FONT size=3>&nbsp;</FONT></TD>
    <TD width="50%"><FONT size=2>Smaller reporting company [&nbsp;&nbsp;
      ]&nbsp;</FONT><FONT size=3>&nbsp;</FONT></TD></TR></TABLE></DIV>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>Indicate by check mark whether the
registrant is a shell company (as defined in Rule 12b-2 of the Exchange Act).
Yes [&nbsp;&nbsp; ] No [X] </FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>As of March 31, 2008, the aggregate
market value of the voting stock held by non-affiliates of the registrant was
approximately $109,255,000, based upon the closing sales price reported by the
NASDAQ Global Market on that date. </FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>As of December 5, 2008, the
registrant had outstanding 9,096,048 shares of Common Stock, $0.01 par value.
</FONT></P>
<P align=center><FONT face=serif size=2>DOCUMENTS INCORPORATED BY REFERENCE
</FONT></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>Portions
of the Definitive Proxy Statement related to the registrant&#146;s 2008 Annual
Meeting of Shareholders, were incorporated by reference into Items 10-14 of
Part III of this Form 10-K. </FONT></P>
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<PAGE>
<P align=center><FONT face=serif size=2>EXPLANATORY NOTE </FONT></P>
<P align=justify><FONT face=serif size=2>Amtech Systems, Inc. (the &#147;Company&#148;)
filed its Annual Report on Form 10-K for the fiscal year ended September 30,
2008 (the &#147;Original Filing&#148;) on December 10, 2008. Exhibits 31.1 and 31.2 to the
Original Filing contained certifications pursuant to Section 302 of the
Sarbanes-Oxley Act of 2002 (the &#147;Certifications&#148;). The Certifications contained
certain inadvertent omissions of the certification language prescribed by Item
601(b)(31)(i) of Regulation S-K. New certifications pursuant to Section 302 of
the Sarbanes-Oxley Act of 2002 add the inadvertently omitted language and are
included as exhibits 31.1 and 31.2 to this Amendment No. 1 to Form 10-K (the
&#147;Amendment&#148;).</FONT></P>
<P align=justify><FONT face=serif size=2>There is no other change made to the
Original Filing except the replacement of the Certifications as described above.
This Amendment makes no attempt to reflect events occurring after the filing of
the Original Filing and does not change any previously reported financial
results of operations or any disclosures contained in that document.</FONT></P>
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<PAGE>
<P align=center><B><FONT face=serif size=2>SIGNATURES</FONT></B></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>Pursuant
to the requirements of Section 13 or 15(d) of the Securities Exchange Act of
1934, the registrant has duly caused this Amendment No. 1 to Report on Form
10-K/A to be signed on its behalf by the undersigned, thereunto duly
authorized.</FONT></P>
<TABLE cellSpacing=0 cellPadding=0 width="100%" border=0>

  <TR vAlign=bottom>
    <TD noWrap align=left width="49%">&nbsp; </TD>
    <TD noWrap align=left width="1%">&nbsp; </TD>
    <TD noWrap align=left width="49%"><FONT face=serif size=2>AMTECH SYSTEMS,
      INC.</FONT>&nbsp; </TD></TR>
  <TR>
    <TD width="99%" colSpan=3>&nbsp; </TD></TR>
  <TR>
    <TD width="99%" colSpan=3>&nbsp; </TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="49%"><FONT face=serif size=2>Date: June 5,
      2009</FONT>&nbsp; </TD>
    <TD noWrap align=left width="1%"><FONT face=serif size=2>By:&nbsp;
      </FONT>&nbsp; </TD>
    <TD noWrap align=left width="49%"><U><FONT face=serif size=2>/s/ Bradley
      C. Anderson</FONT></U>&nbsp; </TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="49%">&nbsp; </TD>
    <TD noWrap align=left width="1%">&nbsp;</TD>
    <TD noWrap align=left width="49%"><FONT face=serif size=2>Bradley C.
      Anderson, Vice President -</FONT>&nbsp; </TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="49%">&nbsp; </TD>
    <TD noWrap align=left width="1%">&nbsp; </TD>
    <TD noWrap align=left width="49%"><FONT face=serif size=2>Finance and
      Chief Financial Officer</FONT>&nbsp; </TD></TR></TABLE><BR>
<P align=center><B><FONT face=serif size=2>INDEX TO EXHIBITS</FONT></B></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>The following exhibits are filed
with this Report.</FONT></P>
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  <TR vAlign=bottom>
    <TD noWrap align=center width="3%"><B><FONT face=serif size=1>Number</FONT></B> </TD>
    <TD noWrap align=left width="1%">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; </TD>
    <TD noWrap align=center width="96%"><B><FONT face=serif size=1>Description</FONT></B> </TD></TR>
  <TR vAlign=bottom>
    <TD vAlign=top align=right width="3%"><FONT face=serif size=2>31.1</FONT></TD>
    <TD vAlign=top align=left width="1%">&nbsp;</TD>
    <TD vAlign=top align=left width="96%"><FONT face=serif size=2>Certification of the Company&#146;s Chief Executive Officer pursuant to
      18 U.S.C. Section 1350, as adopted pursuant to Section 302 of the
      Sarbanes-Oxley Act of 2002. (*)</FONT></TD></TR>
  <TR vAlign=bottom>
    <TD vAlign=top align=right width="3%"><FONT face=serif size=2>31.2</FONT></TD>
    <TD vAlign=top align=left width="1%">&nbsp; </TD>
    <TD vAlign=top align=left width="96%"><FONT face=serif size=2>Certification of the Company&#146;s Chief Financial Officer pursuant to
      18 U.S.C. Section 1350, as adopted pursuant to Section 302 of the
      Sarbanes-Oxley Act of 2002. (*)</FONT></TD></TR></TABLE><BR>
<P align=justify><FONT face=serif size=2>* Filed herewith. </FONT></P>
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<DOCUMENT>
<TYPE>EX-31.1
<SEQUENCE>2
<FILENAME>exhibit31-1.htm
<DESCRIPTION>CERTIFICATION OF THE COMPANY'S CHIEF EXECUTIVE OFFICER
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<P align=right><FONT face=serif size=2>Exhibit 31.1 </FONT></P>
<P align=center><FONT face=serif size=2>AMTECH SYSTEMS, INC. AND ITS
SUBSIDIARIES<BR>CERTIFICATION PURSUANT TO RULE 13a-14(a)/15d-14(a)<BR>OF THE
SECURITIES EXCHANGE ACT OF 1934, AS AMENDED</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>I, Jong S. Whang, certify that:
</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>1. I have reviewed this Annual
Report on Form 10-K of Amtech Systems, Inc. (the &#147;registrant&#148;); </FONT></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>2. Based
on my knowledge, this report does not contain any untrue statement of a material
fact or omit to state a material fact necessary to make the statements made, in
light of the circumstances under which such statements were made, not misleading
with respect to the period covered by this report; </FONT></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>3. Based
on my knowledge, the financial statements, and other financial information
included in this report, fairly present in all material respects the financial
condition, results of operations and cash flows of the registrant as of, and
for, the periods presented in this report;</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>4. The registrant&#146;s other certifying
officer and I are responsible for establishing and maintaining disclosure
controls and procedures (as defined in Exchange Act Rules 13a-15(e) and
15d-15(e)) and internal control over financial reporting (as defined in Exchange
Act Rules 13a-15(f) and 15d-15(f)) for the registrant and have: </FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(a) Designed such disclosure
controls and procedures, or caused such disclosure controls and procedures to be
designed under our supervision, to ensure that material information relating to
the registrant, including its consolidated subsidiaries, is made known to us by
others within those entities, particularly during the period in which this
report is being prepared;</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(b) Designed such internal control
over financial reporting, or caused such internal control over financial
reporting to be designed under our supervision, to provide reasonable assurance
regarding the reliability of financial reporting and the preparation of
financial statements for external purposes in accordance with generally accepted
accounting principles;</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(c) Evaluated the effectiveness of
the registrant&#146;s disclosure controls and procedures and presented in this report
our conclusions about the effectiveness of the disclosure controls and
procedures, as of the end of the period covered by this report based on such
evaluation; and</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(d) Disclosed in this report any
change in the registrant&#146;s internal control over financial reporting that
occurred during the registrant&#146;s most recent fiscal quarter (the registrant&#146;s
fourth fiscal quarter in the case of an annual report) that has materially
affected, or is reasonably likely to materially affect, the registrant&#146;s
internal control over financial reporting; and </FONT></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>5. The
registrant&#146;s other certifying officer and I have disclosed, based on our most
recent evaluation of internal control over financial reporting, to the
registrant&#146;s auditors and the audit committee of the registrant&#146;s board of
directors (or persons performing the equivalent functions):</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(a) All significant deficiencies and
material weaknesses in the design or operation of internal control over
financial reporting which are reasonably likely to adversely affect the
registrant&#146;s ability to record, process, summarize and report financial
information; and</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(b) Any fraud, whether or not
material, that involves management or other employees who have a significant
role in the registrant&#146;s internal control over financial reporting. </FONT></P>

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    <TD style="BORDER-BOTTOM: #ffffff 1pt solid" noWrap align=left width="1%">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>
    <TD noWrap align=right width="1%"><FONT size=2>By&nbsp;</FONT></TD>
    <TD noWrap align=left width="1%">
      <P><FONT face=serif size=2><U>/s/ Jong S. Whang</U></FONT></P></TD>
    <TD noWrap align=left width="20%">&nbsp;</TD>
    <TD noWrap align=left width="76%">&nbsp;</TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>
    <TD noWrap align=left width="97%" colSpan=3>
      <P><FONT face=serif size=2>Jong S. Whang</FONT></P></TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%">
      <P><FONT face=serif size=2>President and Chief Executive
    Officer</FONT></P></TD>
    <TD noWrap align=left width="96%" colSpan=2>&nbsp;</TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="97%" colSpan=3><FONT face=serif size=2>Amtech
      Systems, Inc.</FONT>&nbsp;</TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="97%" colSpan=3><FONT face=serif size=2>Date:
      December 10, 2008</FONT>&nbsp;</TD></TR></TABLE><BR>
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<DOCUMENT>
<TYPE>EX-31.2
<SEQUENCE>3
<FILENAME>exhibit31-2.htm
<DESCRIPTION>CERTIFICATION OF THE COMPANY'S CHIEF FINANCIAL OFFICER
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<P align=right><FONT face=serif size=2>Exhibit 31.2 </FONT></P>
<P align=center><FONT face=serif size=2>AMTECH SYSTEMS, INC. AND ITS
SUBSIDIARIES<BR>CERTIFICATION PURSUANT TO RULE 13a-14(a)/15d-14(a)<BR>OF THE
SECURITIES EXCHANGE ACT OF 1934, AS AMENDED</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>I, Bradley C. Anderson, certify
that: </FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>1. I have reviewed this Annual
Report on Form 10-K of Amtech Systems, Inc. (the &#147;registrant&#148;); </FONT></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>2. Based
on my knowledge, this report does not contain any untrue statement of a material
fact or omit to state a material fact necessary to make the statements made, in
light of the circumstances under which such statements were made, not misleading
with respect to the period covered by this report; </FONT></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>3. Based
on my knowledge, the financial statements, and other financial information
included in this report, fairly present in all material respects the financial
condition, results of operations and cash flows of the registrant as of, and
for, the periods presented in this report; </FONT></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>4. The
registrant&#146;s other certifying officer and I are responsible for establishing and
maintaining disclosure controls and procedures (as defined in Exchange Act Rules
13a-15(e) and 15d-15(e)) and internal control over financial reporting (as
defined in Exchange Act Rules 13a-15(f) and 15d-15(f)) for the registrant and
have:</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(a) Designed such disclosure
controls and procedures, or caused such disclosure controls and procedures to be
designed under our supervision, to ensure that material information relating to
the registrant, including its consolidated subsidiaries, is made known to us by
others within those entities, particularly during the period in which this
report is being prepared;</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(b) Designed such internal control
over financial reporting, or caused such internal control over financial
reporting to be designed under our supervision, to provide reasonable assurance
regarding the reliability of financial reporting and the preparation of
financial statements for external purposes in accordance with generally accepted
accounting principles;</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(c) Evaluated the effectiveness of
the registrant&#146;s disclosure controls and procedures and presented in this report
our conclusions about the effectiveness of the disclosure controls and
procedures, as of the end of the period covered by this report based on such
evaluation; and</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(d) Disclosed in this report any
change in the registrant&#146;s internal control over financial reporting that
occurred during the registrant&#146;s most recent fiscal quarter (the registrant&#146;s
fourth fiscal quarter in the case of an annual report) that has materially
affected, or is reasonably likely to materially affect, the registrant&#146;s
internal control over financial reporting; and</FONT></P>
<P align=justify>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT face=serif size=2>5. The
registrant&#146;s other certifying officer and I have disclosed, based on our most
recent evaluation of internal control over financial reporting, to the
registrant&#146;s auditors and the audit committee of the registrant&#146;s board of
directors (or persons performing the equivalent functions):</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(a) All significant deficiencies and
material weaknesses in the design or operation of internal control over
financial reporting which are reasonably likely to adversely affect the
registrant&#146;s ability to record, process, summarize and report financial
information; and</FONT></P>
<P align=justify><FONT face=serif size=2><FONT size=3>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</FONT>(b) Any fraud, whether or not
material, that involves management or other employees who have a significant
role in the registrant&#146;s internal control over financial reporting. </FONT></P>
<TABLE cellSpacing=0 cellPadding=0 width="100%" border=0>

  <TR vAlign=bottom>
    <TD style="BORDER-BOTTOM: #ffffff 1pt solid" noWrap align=left width="1%">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>
    <TD noWrap align=right width="1%"><FONT size=2>By&nbsp;</FONT></TD>
    <TD noWrap align=left width="10%"><FONT face=serif size=2><U>/s/ Bradley
      C. Anderson</U></FONT></TD>
    <TD noWrap align=left width="20%">&nbsp;</TD>
    <TD noWrap align=left width="67%">&nbsp;</TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>
    <TD noWrap align=left width="97%" colSpan=3><FONT face=serif size=2>Bradley C. Anderson</FONT>&nbsp;</TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="10%"><FONT face=serif size=2>Vice President &#150;
      Finance and Chief Financial Officer</FONT></TD>
    <TD noWrap align=left width="87%" colSpan=2>&nbsp;</TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="97%" colSpan=3><FONT face=serif size=2>Amtech
      Systems, Inc.</FONT>&nbsp;</TD></TR>
  <TR vAlign=bottom>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="1%"></TD>
    <TD noWrap align=left width="97%" colSpan=3><FONT face=serif size=2>Date:
      December 10, 2008</FONT>&nbsp;</TD></TR></TABLE><BR>
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