The Gunners head out to Bavaria looking to overturn a 2-0 deficit from the first leg of their Champions League last 16 clash, which they finished with 10 men after goalkeeper Wojciech Szczesny was sent off for what was deemed a professional foul.
It is not the first time Arsenal have found themselves on the wrong side of calls from officials in Europe, with the red card for midfielder Mikel Arteta in the last group game of the current campaign away to Napoli part of a defeat which meant they finished runners-up and so were drawn against the holders.
Wenger hopes history does not repeat itself again when Norway referee Svein Oddvar Moen takes charge of Tuesday's game.
"We have played a few times with 10 men in Europe and always under very special circumstances - in the Champions League final, now against Bayern," Wenger said.
"When we played at Barcelona when we were in a position to qualify, it is a second yellow card and the only time I have seen that since I watched European football when (Robin) van Persie was sent off (for kicking the ball away), so I hope we get a fair chance to play with 11 against 11 until the end."
Manchester City boss Manuel Pellegrini was handed an immediate two-match touchline ban by UEFA for claiming Swedish official Jonas Eriksson was "not impartial to both teams" after the 2-0 home loss to Barcelona.
Wenger believes match officials at this level should be able to handle the occasion.
"What we want is a good referee and the closer they are to the tough leagues, the more chances they have to detect the tricks that can decide the game, but that is the same for Bayern, because I talk about my players and the Bayern players," the Arsenal boss said.
"What I mean sometimes is that when you come from a league that is less pacey - I don't know.
"Honestly, I never look at the referee before the game. I never have any preconceived ideas.
"Sometimes when referees have big experience it helps them get out of tricky situations.
"I think you do not want players to stay on the pitch who deserve to be sent-off, but as well you do not want games to be killed, or the interest of the game to be killed, for reasons that are tricky.
"To find that kind of balance the experience of the referee is important."
Bayern are 20 points clear at the top of the Bundesliga and are unbeaten at home in their domestic league since October 2012.
Wenger, though, insists his side, buoyed by their FA Cup quarter-final win over Everton, should be confident of a repeat performance from last season, when they produced a remarkable performance in Munich to win 2-0 and exit the competition only on away goals.
"History is important in your belief. We have done it before, so we know we can do it because we have done it," said Wenger.
"It is a possible task, that is the most important for us.
"I believe my team has quality and ambition, and I believe if we produce a top level performance, then we can do it."
- Sports & Recreation
- Champions League
- Wojciech Szczesny