Yeah, some of the action scenes were surprisingly clunky, like what you just mentioned. And when all those cops rushed en masse the terrorists, who had automatic rifles...uh, yeah.
Cat Woman/Anne Hathaway was the best thing about the movie IMO, both from a visual perspective (yowza) and from a character perspective. All the leads were great, but her character was a lot of fun. The villain, well, I pity anyone having to follow in Heath Ledger's shoes. An impossible task.
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