The Second Leg Semi-Final matches and the Final were postponed due to the COVID-19 pandemic in Greece until June.

The Final was rescheduled for 30 August in the Olympic Stadium but it was postponed again because Olympiacos' player Maximiliano Lovera was tested positive for COVID-19.

[2] Two of the fixtures, Kalamata–Atromitos Patras and Enosis Vathyllos-Pansamiakos–Aiolikos were postponed in light the bids of Kalamata and Aiolikos to enter the Football League.

[2] Kalamata were eventually greenlighted to play in the Football League by decision of the HFF, taking the place of Nestos Chrysoupoli, who withdrew their participation.

[3] As such, despite being drawn against Atromitos Patras, they advanced to the Third Round draw on walkover.

[5] 12 single-match fixtures were determined, of which the winners will qualify to the next Round.

[7] 12 single-match fixtures were determined, of which the winners qualified to the next Round.

[9] As of this phase onward, teams play against each other over two legs on a home-and-away basis, except for the one-match final.

[9] A total of 11 fixtures were determined, of which the winners will qualify to the Round of 16.

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 took place on 16 December 2019.