I actually enjoyed both of those movies. TDKR's was better to me though.
I hated that Bane was killed by Catwoman. I felt Bane was a great villain throughout the film, I believe it was set up for Batman to eventually be the one to take down Bane in some way. But the way he was killed was so anti-climatic.
And I hated that Stark's girl was the one that killed the Mandarin, I did not pay to see Iron-Woman.
This may not have been an issue for some people, but it was for me.