It's almost certainly a coincidence that it was an Aegean flight involved. It seems strange that the airport is still closed six hours later. Surely if it's "just" someone who was high and broke through the fence and was immediately arrested, there's no reason to stop operations for that long!
I didn't realise what a quiet airport HAJ is (at time) - there was nothing due to arrive or depart for 30 or 40 minutes either side of the A3 flight. Indeed, that incoming aircraft was to have been the next departure. I suppose someone could have been waiting to chase that particular flight...