Plot hole: When Bridgette ran through the glass and Linda and Jim were at the hospital Jim tells Linda he called her mom and told her what happened and she was coming to stay over the next day. Yet apparently her mom forgot what happened because she had her committed because Linda didn't remember what happened to Bridgette's face. Also, Bridgette was like 9. How come no-one just asked her what happened?
Plot hole: During the climatic battle in the snow, Lyra Belacqua is about to get shot by one of the soldiers, and Iorek Byrnison comes to her rescue and is able to surprise & kill the soldier. The problems with this is where Iorek appears would have been right in the line of sight of the solider, and bearing in mind that Iorek is VERY big, wearing armour so as not to blend in with the white surroundings, and making lots of noise, it would have been impossible for Iorek to stealthily appear from nowhere.
Plot hole: Harry can now see the thestral creatures because he witnessed Cedric Diggory's death in "Goblet of Fire." However, he should have been able to see the thestrals after Professor Quirrell died from Harry's touch in "Philosopher's Stone". Quirrell crumbles into dust (dying) while Harry is still conscious, watching, and fully aware of what he is seeing, thus allowing it to fully sink into his consciousness. Harry faints "after" Quirrell is dead and as Voldemort's spirit passes through his body. Nor does it only have to be a friend or loved one who dies before the thestrals can be seen - it can be anyone, including an enemy like Quirrell. There only has to be an emotional response to the death, which can be love, hate, fear, shock, etc. (In the book, Harry did not see Quirrell die, but that's irrelevant to the film).
Suggested correction: JK Rowling has said that in order to be able to see thestrals the death has to "sink in" psychologically with the person. Which was her explanation for why he couldn't see thestrals even though he witnessed his mother's death. Given Harry's age and the way Quirrell died, it is possible that Quirrell's death didn't have enough of a psychological impact on him to "sink in." After I first personally witnessed a violent death, I didn't feel the impact until a few years later. It can take time.
Plot hole: After Abe is shot, an ambulance shows up, throws Sherry in the back and leaves. There is no way that the paramedics would leave without first speaking to the police on site, making sure that no one else there needed medical help and confirming Abe was dead. I've ridden with an ambulance 4 or 5 times and they never stay at a scene less than 15-20 minutes.
Plot hole: In the scene with the brothers group, the guys don't believe that Fred is Santa Claus's brother (because they don't believe in Santa). But why don't they believe in Santa? Santa leaves gifts for kids on Christmas. If they don't believe in Santa then where do they think the presents came from?
Plot hole: When everyone is passing the bill and Evan's suit changes to the robe, how is it that no one noticed that he came in wearing normal clothing and then his clothes changed into the robe in less than a second. Heck it showed his family watching him walk right into the room wearing normal clothing, and then watched him the entire time. How did they not notice that he never once changed his clothes?
Plot hole: When the chipmunks finally release their first song, there is a montage showing the chipmunks rising musical success. In one shot we see a marquee promoting "The Chipmunks Premiere CD Release", and on it is a picture of the chipmunks in the clothes Dave has made them (note Alvin in his 'A' jumper.) However, Dave doesn't actually make the chipmunks these clothes until further on in the film. (00:41:50)
Plot hole: I can somewhat understand that in a kiddies' show all aliens can inexplicably speak English - but using Terranean (i.e.: Arabian) numbers as well? While Tetrax's computer uses alien runes, the readout on Gluto's holographic HUDs use Arabic numbers - somewhat a bit too deliberate a producer choice to emphasize intergalactic communication.