You can see why almost everyone suggested in your other thread that you should set the mains to "small" and crossover to 80 Hz or higher. They look worse in the bass region, but it could be partially due to Audyssey's attempt to integrate them with the subwoofer. The subwoofer one looks much more normal.
Overall, the graphs actually do look more normal than not, though you should be able to get flatter results if you try running auto set up again following instructions to the letter, pay more attention to the following:
- Point the mic straight to the ceiling and is 2-3 inches above the top and away from the back of your couch.
- Turn off your HVAC system, make sure the room is as quiet as possible, if during the chirps you hear noise from the outside such as road and air traffic, repeat when the room is quiet again.
- Do as many mic positions as practically possible, at 5 or 6, 8 would be better.