The year before they won the Bundesliga (while finishing with a point total that was 1 short of the all time record), scored 94 goals, had a goal difference of +71, won the DFB Pokal final vs Borussia Dortmund, and lost to the eventual winners in the semi-final of the Champions League. His teams don't get hammered by equal oppositions. Arsenal winning a couple of freak games does not suggest a pattern. In Pep's first season, they beat Arsenal 3-1 on aggregate. Wenger's team can have good results against the best teams around, not just Bayern Munich.
There's a lot about Pep's Bayern to be impressed about. As I said earlier, he manages to have his player master a very difficult style of play that requires a lot of training. This specific style has proven to be very effective in humiliating teams who are lesser anyway.
But this style has untill now been very ineffective in the really important things, like beating clubs as good as Barcelona or Real Madrid. They didn't even come close to beating them, they were no match to the best clubs in the world, they got humiliated themselves. That's just a matter of facts, so far Pep's Bayern has failed in their biggest ambition and failed harshly and clearly. This of course could be an unfortunate incident, two years in a row. In my opinion it is not, and I predict they will fail again this year, because to me it seems inherent to Pep's style that it becomes more ineffective against better sides. Even teams with lesser players like Arsenal, Dortmund and Wolfsburg can have a go at them.
If you want to be the best you have to beat the best, for that it's not important if you beat lesser sides 7-0 or grind out a lousy 1-0 in the last minute. His style of play just seems the wrong choice for winning the CL or be at least a very strong contender.