The Nolan Trilogy may seem better story wise to some degree, but each movie always had something irked me about each movie. Batman Begins always thought the whole water supply thing was weak turning the people in the city to be crazy. TDK, the whole Two-Face thing, dude is mad strong to survive the explosion and a major car accident but he can't survive that weak ass fall. As for the TDKR it had more problems than the other two.
Nolan was never good at directing action, and the action as always lacked in those movies. The camera angles were too close in Batman Begins, TDK &TDKR, the way the stunt performers would just fall with the lack of movements of Batman. Even though the camera work for the fights in TDKR was an improvement, but still not that great.
That's what set's the Cap movies apart, it's entertaining and consistent, the action scenes were top notch especially with the Russo's at helm. From what I am reading looks like they even up the ante again with the Civil War movie.