Audio problem: In the scene where Alfred is stitching up Bruce, Bruce says "I wanted to inspire people." As he says "people" the shot changes and his lips aren't moving, but the audio track continues.
Audio problem: During a scene where Donna is exiting her hotel room, she runs into Clair and both scream. However, Clair's scream cannot be heard, but an odd screeching sound is played in place of her scream, which continues even after her mouth has been closed.
Audio problem: Right after Det. Corelli finds the limerick in her apartment, she pulls out her gun and there is a distinct sound of what's supposed to be her cocking the hammer on her pistol. However, Det. Corelli (along with all the other cops in the movie) uses a Glock semi-auto pistol, which does not have an external hammer that can be "cocked." The sound is added artificially, likely for dramatic effect. (01:06:30)
Audio problem: When Ami first gets her machine-gun arm and is blasting away at the teenage Ninjas (in red), when she blows a hole through the stomach of the second Ninja, you can hear one extra gun-shot after Ami stops firing her gun.