PAOK's owner, businessman Ivan Savvidis, came on the field twice and was accompanied by bodyguards.
The Greek football federation´s appeals committee decided early Sunday to return three points docked from PAOK last week over the February 25 match with Olympiakos, when visiting coach Oscar Garcia was hit by an object thrown from the stands.
The Greek Super League match between PAOK and AEK Athens was postponed on Sunday after the former's owner, who appeared to be armed with a gun, and his entourage stormed the pitch following the disallowing of a late goal.
He was angry after his side had a 90th minute goal against rival club AEK Athens disallowed for offside.
If a PAOK official is judged to have threatened the referee as well as the AEK official, the team could potentially face relegation. Adding to the widespread confusion, there were claims that the referee, Giorgos Kominis, had actually allowed the goal.
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Savvidis asked his team to leave the pitch following the offside decision then marched towards the referee before being pulled back by bodyguards.
The committee also erased its decision to have PAOK play their next two home matches behind closed doors.
"We learned later that the president had a gun, we did not see it there on the pitch".
A win for PAOK would've seen them cute the gap between themselves and their opponents at the top of the Greek Superleague, but it seemed unlikely to happen.