The print I saw(at the UA Grant in NE Philly), had all of the problems you mention, Mat, plus scratches galore right after the reel changes, and the picture was slightly out of focus. And film exhibitors wonder why people prefer to stay home and watch the movies on DVD or HiDef!
I watched both X-MEN films this week in order to get myself hyped for X3, and both are really good character driven films(especially 2). It's a shame if all of that development has gone to waste for the third film. Keeping my fingers crossed, but I'm expecting to be disappointed.