Exhibit 31.1

                  Certification of the Chief Executive Officer
                          (Pursuant to Rule 13a-14(a))

I, David L. Cox, Chairman of the Board,  President and Chief Executive  Officer,
certify that:

     1.  I have reviewed this Form 10-Q of Emclaire Financial Corp.;

     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;

     3.  Based on my knowledge,  the financial  statements,  and other financial
         information  included in this  report,  fairly  present in all material
         respects the consolidated  financial  condition,  results of operations
         and cash flows of the registrant as of, and for, the periods  presented
         in this report;

     4.  The registrant's other certifying  officer(s) 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
         controls  over  financial  reporting  (as defined in Exchange Act Rules
         13a-15(f) and 15d-15(f)) for the registrant and have:

              (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 subsidiary,  is
                  made known to us by others within those entities, particularly
                  during the period in which this report is being prepared;

              (b) Designed such internal  controls over  financial  reporting or
                  caused such internal  controls over financial  reporting to be
                  designed  under  our   supervision,   to  provide   reasonable
                  assurance regarding the reliability of financial reporting and
                  preparation of financial  statements for external  purposes in
                  accordance with generally accepted accounting principles.

              (c) Evaluated the  effectiveness  of the  registrant'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

              (d) Disclosed  in  this  report  any  change  in the  registrant's
                  internal control over financial reporting that occurred during
                  the registrant's  most recent fiscal quarter (the registrant's
                  fourth  fiscal  quarter in the case of an annual  report) that
                  has materially affected, or is reasonably likely to materially
                  affect,  the  registrant's  internal  control  over  financial
                  reporting.

     5.  The  registrant's  other  certifying  officer(s) and I have  disclosed,
         based on our most recent  evaluation of internal control over financial
         reporting,  to the registrant's auditors and the audit committee of the
         registrant's  Board of Directors (or persons  performing the equivalent
         functions):

              (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's ability to record, process,  summarize and report
                  financial information; and

              (b) Any fraud,  whether or not material,  that involves management
                  or  other  employees  who  have  a  significant  role  in  the
                  registrant's internal control over financial reporting.

     Date:  November 14, 2008              By:      /s/ David L. Cox
                                           -------------------------------------
                                           David L. Cox
                                           Chairman of the Board,
                                           President and Chief Executive Officer


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