2008–09 Bosnia and Herzegovina Football Cup was the fourteenth season of the Bosnia and Herzegovina's annual football cup, and a ninth season of the unified competition. The competition started on September 24, 2008, with the First Round and got concluded on May 28, 2009, with the Final.

First round

Thirty-two teams entered in the First Round. The draw was held on September 11 while the matches were played on September 24, 2008.

Second round

The draw for the Second Round was conducted on September 23, 2008. The matches were played on October 1 (first legs) and October 8, 2008 (second legs).

Quarterfinals

The draw for the Quarterfinals was conducted on October 21, 2008. The matches were played on October 29 (first legs) and November 12, 2008 (second legs).

Semifinals

The matches were played on March 25 (first legs) and April 15, 2009 (second legs).

Final

Second leg

''Slavija 2–2 Sloboda on aggregate. Slavija won 4–3 on penalties.''