Ozil has not featured since the first leg, missing the last two games against Sutton United and Liverpool.
But he returns tonight despite struggling with the flu himself.
Alexis Sanchez also starts in a front three with Danny Welbeck and Theo Walcott.
Mesut Ozil is back in the Arsenal squad after missing the last three games
Bayern Munich v Arsenal combined XI
Tue, March 7, 2017
Click through the gallery for the best combined Arsenal-Bayern Munich line-up
1 of 12
Click through the gallery for the best combined Bayern Munich-Arsenal line-up
Rio Ferdinand and Ian Wright on Arsenal's lack of progression
Arsenal fan believes the club won't pay Alexis Sanchez 'what he wants'
Arsene Wenger responds to questions about him leaving Arsenal
Sanchez was dropped for the Liverpool defeat but came on at half time.
Iwobi is understood to have withdrawn through illness meaning Ozil has been selected.
Arsenal face an incredible task this evening in hauling back a four-goal deficit from the first leg after losing 5-1 in Munich.
Get Quotes on Home Insurance