His first game in charge was a 1–1 draw against OFI Crete in Crete on 23 November 2008. The first season in his third spell in-charge of "Dikefalos Aetos" brought ups and downs. AEK in the league, finished 4th, thus qualifying for the seasons annual play-offs in which AEK finished 2nd meaning qualification for next seasons Europa League. Bajević managed to get AEK to the Greek Cup Final where they came up short handed as they lost 16–15 on penalties to Olympiacos after the game finished 4–4 after extra time.