The 2006–07 Macedonian Football Cup was the 15th season of Macedonia's football knockout competition. Makedonija G.P. were the defending champions, having won their first title. The 2006–07 champions were Vardar who won their fifth title.

Competition calendar

First round

Matches were played on 30 July 2006. 1Interrupted at 0–2. Match awarded to Shkëndija 79.

Second round

The draw was held on 18 August 2006 in Skopje. The first legs were played on 20 September and second were played on 18 October 2006.

Quarter-finals

The draw was held on 20 October 2006 in Skopje. The first legs were played on 1 November and second were played on 29 November 2006.

Semi-finals

The draw was held on 5 December 2006 in Skopje. The first legs were played on 11 April and the second on 2 May 2007.

Summary

Matches

Pobeda won 3–1 on aggregate. Vardar won 3–2 on aggregate.

Final