Plot hole: In the scene where Lewis and Clark nearly hit the Event Horizon, One of the crew is calling out the closing distance and another confirms this information. Regardless of clouds obscuring their view they were aware of their proximity and the fact that they were speeding towards it and forced to attempt an abrupt stop makes no sense.
Plot hole: When Eve is being led out to the airplane, she bolts when two shots are fired from inside the house (presumably Anna firing at Thornhill, not realizing that the gun was loaded with blanks). Moments later, she jumps into a car driven by Thornhill, and they escape together. There is no way Thornhill could have gotten there that fast, given that he was in the house only seconds earlier.
Plot hole: When Margaret has to collect the $50,000, she goes around to various banks trying to get a loan on their house, which she can't get because her husband, co-owner of the house, isn't around. Why couldn't she just have taken the papers, said she was going to take them home to her husband, forged his signature, and brought them back? You can't exactly say she has either moral problems or isn't devious enough, since we've already seen her stuff a body into a dinghy, toss it into the lake, and come back to her house looking fairly normal.
Plot hole: In the cafe scene after the fingerprints have been identified as belonging to someone who was thought to have been killed, Jean Reno tells Vincent Cassel that the person who shot at him had all ten fingers. How did he know that? The audience only sees one hand which is holding the pistol and the other hand is out of sight.
Plot hole: After Noah stabs Lucius, Ivy is brought to see Noah who is locked up in the "quiet room". As they leave, the lock is being placed on the latch to lock Noah in, and soon after the door is rattling, presumably Noah in an attempt to open it. If you look closely, you can see that the rattling occurs because the door lock is locked and not because of the lock on the latch. Quite strange, as we clearly see the lock placed on the latch right after the door is closed. There could not possibly have been time for the door lock to be locked with a key.
Plot hole: When Freddy takes over Jesse's body at the party, there are several people watching through the patio doors when he confronts Lisa. None of these people ever make a sound, even when they see Lisa have a knife fight with a horribly disfigured man with long knives coming out of his fingers. The other party goers are completely oblivious to Freddy's presence until he comes jumping through the glass doors.
Plot hole: The police let Norman back to his house on the same night multiple murders happened. He is even allowed into the fruit cellar, where most of them happened. (01:38:25)
Plot hole: In one scene Eric Stoltz throws an angel out a window. This angel then lands on the roof of a parked car, bounces off as another car runs into him, smashing him against a stainless wall. Now, this is a blind street, a dead end, so why would anyone race like this?
Plot hole: Most of the story depends on Costa coming forward as a witness; however, he would have had no reason to do this. It would only make his goal of assuming others' identities more difficult.
Suggested correction: Some serial killers try to involve themselves with the investigation, for instance famous serial killer Ed Kemper.
Plot hole: When Jason is in Ginny's cabin, she's under the bed seeing where he's at. So how did Jason manage to get up on a chair and wait for her to come out without her seeing him do this? She had to see him do that, but when she pokes her head out, she's surprised to see him there.
Suggested correction: She was a bit preoccupied with the rat that got up close and personal to her. She heard the creaking, but when she looked back, she didn't see him, assuming that the sound was made by him exiting through the cabin's door. The creaking was actually him getting up on that chair, but she wasn't looking at the door because the rat was in her face.
Plot hole: After Pikachu and Mewtwo begin falling down, Tim is suddenly on the ground in a matter of seconds, with little to no time to arrive there. There are multiple stairs, and he does not have any Pokémon to help him get down. He couldn't have gotten to the ground that fast.
Plot hole: If Marybeth was able to seal her nostrils and use her extended finger to remove the cap and make nobody suspicious about her, why didn't Delilah do the same thing? She was alien, so she should've still been able to do it, same as Marybeth.
Plot hole: In the scene after the bank job where Charlene waves Chris off alerting him of the setup, Chris drives away and is stopped by the cops to verify who he is. He has a fake ID and they let him go. The police CLEARLY know who Chris is and what he looks likes for most of the movie but somehow, those cops don't have anything with Chris' name and face on it?
Plot hole: Spoiler Warning. It turns out that Dan Merrick is actually Jack Stanton after a whole lot of reconstructive surgery to make him look like Dan Merrick. Everything is believable except that he has Dan Merrick's voice as well. He should have Jack Stanton's voice.
Plot hole: When Grace Stewart sends Ann out of the music room for "lying," the hall is visible as she opens the door - with lots of light from windows bursting in. I know it turns out not to matter, but the child would have screamed.
Plot hole: The Death Note that Misa brings to L headquarters is supposed to be fake, but when Light touches it he can see the Shinigami Ryuk.
Suggested correction: Light saw Ryuk after he tried writing a name down in the piece of the notebook hidden in his watch. Since he touched that piece, it makes perfect sense he would see Ryuk as that piece was originally part of Ryuk's death note and wasn't swapped by L.
Plot hole: Darby goes to great pains to get out of the country, to where no one will know where she is but Grantham. But upon reaching her "secret" destination, a van pulls up to the plane and a man gets out and hands them an envelope with a copy of the front page of the Washington Hearld with their breaking story and both their names as by-lines. That couldn't happen unless other people besides Grantham and the pilots knew her destination.
Plot hole: During David Leigh's narrative about Jim's court case, you are shown a number of newspaper headlines concerning the murders. One shows a shot of Locus looking at camera, with the caption 'Did Locus see his killer?' That shot was on the missing film which was found by David Leigh AFTER the murders were forgotten. So how did the paper get the picture?
Plot hole: Towards the end, Patrick takes the 5kt bomb into a helicopter and climbs it away to safety. The problem with that is that the helicopters have a rather low rate of climb - ~10 m/s for military helicopters, less than that for civilian ones. This is the rate of climb at low altitudes, and it is with altitude. He had less than 5 minutes to climb, which would put the bomb at most 3000 meters above the city, and more realistically, one tenth that - just about the optimum height for the bomb to inflict major damage on the Vatican city and the center of Rome.