Under the Frenchman's guidance, the Gunners have gone almost eight years without lifting a trophy.
However, ahead of his side's meeting with Arsenal at the Emirates Stadium tomorrow night, Heynckes has described his opposite number as a "great coach".
"You have to take into consideration that Arsenal are competing with teams like Chelsea, Manchester United and Manchester City," he told reporters.
"The way I see it, over the years they have been selling their best players whereas the other teams get in these world stars. If you have to compete with that I don't think it is fair to blame Arsene Wenger. Wenger is a great coach. You see the way his teams play.
"Arsenal has a lot of tradition and history. They play attractive football. If you take away the game against Blackburn they have been very positive. They're fifth in the league. They will be a very difficult opponent for us tomorrow."
Heynckes's team go into the match having not conceded a goal in 2013.