The competition commenced on 9 September 2015 with the preliminary round and was planned to conclude on 23 April 2016 with the final, at the Olympic Stadium.

The cup was cancelled by the Greek government on 3 March 2016, following crowd violence.

[1] On 5 April 2016, FIFA Emergency Committee decided to provide the Greek authorities with a deadline to have the cancellation of the competition reversed before 15 April 2016 or the Hellenic Football Federation would face an automatic suspension.

[2] The Greek authorities announced on deadline day that the Greek Football Cup will be resumed after an agreement reached with FIFA, UEFA and Hellenic Football Federation.

The team that scored more goals on aggregate over the two legs advanced to the next round.

If no goals were scored during extra time, the winners were decided by a penalty shoot-out.

In the final, which were played as a single match, if the score was level at the end of normal time, extra time was played, followed by a penalty shoot-out if the score was still level.The mechanism of the draws for each round is as follows: The draw for this round took place on 18 December 2015.

After the PAOK–Olympiacos match on 2 March being abandoned due to crowd violence, the Cup was cancelled,[1] before being resumed on 15 April 2016.