Originally Posted by The Joker
When you hear how bad Bruce's body is in the hospital scene, you know it would have taken years for it to get in such a state.
Talking about this, I'm genuinely curious about the nature of the injuries. Bruce was being Batman constantly during the period between Begins and TDK. That meaning being hit constantly, and perhaps stabbed and shot. Also taking into account falling from high places, even with the aid of the cape, I'm guessing that could take a toll into the articulations. Not to mention the sleep deprivation.
I'm guessing the limp Bruce has Rises is because his battle with the Joker and Two-Face final encounter. He was limping in the last scene in TDK. That makes me think that one of the reasons he stopped being Batman was the body damage. Added to that, now he was being hunted by the authorities and later with the creation and passing of the Dent act.