Continuity mistake: In the scene where the Batmobile diagnostics detects a foreign object, it shows it being located approximately to the front-left of the windshield. It is also a 2D plan view. Yet Batman automatically knows it is BELOW the car and punches through the floor directly beneath him, which is nowhere near where the Batmobile detects it. (01:21:35)
Continuity mistake: When the baby basket is floating through the sewers, there are shadows but no lights, except for one scene where the lights are under water.
Other mistake: At the end as Penguin is dying after coming up out of the water, blue/black "blood" is coming from his mouth. However the cuts and bruises on his face have red blood coming from them, indicating the inconsistency of what color blood he should be bleeding.