The only issue I had with TDK was the phone bugging/sonar thing. Just seemed........worthless. I like the moral choice it gave Bruce and Lucious, but they could have done that in a much better way.
I was fine with the Two Face thing. The joker, in that movie, turned him into two face, it was a little rushed though, I would have liked it had the movie been another hour longer. But not drawn into two different movies.