Plot hole: When Jackson announces that the symbols are stars, constellations, not words, they immediately go to the room with the device and they have a state-of-the-art map of the universe (which shouldn't even be able to fit on that small map). So they knew it had something to do with travel and the stars. But after two years, couldn't they figure out the star constellations?
Plot hole: If the curse counts an eclipse as night, then Navarre should have turned into a wolf during the eclipse. If the curse does not count the eclipse as night, then Isabeau should have remained a hawk. In neither case would they both have been human at the same time.
Suggested correction: That is the whole point; it is neither day nor is it night. Each only suffers the curse when it is specifically day or specifically night. Any time it is not one of those two events, the curse is not active, as shown earlier in the movie when both are human for seconds during a time in between day and night.
Plot hole: During the supercomputer's destruction, the 3 electrical probes that are sending lightning to the overhead pylons to draw electricity from them are no longer flashing. So where is the electricity coming from to sustain the computer's lighting system as the fluorescent tubes are still working?
Plot hole: The pipe bomb that Maggie uses to kill Freddy is the same one that was found in Spencer's room earlier in the film. It's already been established that Freddy was erasing the people he's been killing from existence, so that pipe bomb wouldn't be there to use on Freddy.
Plot hole: April and Kenshin switch place in time as they were - by some extraordinary coincidence - holding the scepter "at the same time" (if the concept makes any sense) in the exact same pose, with a switch that takes several second of intense lightning storms and 'tornado weather' as one of the Turtles put it. Here there is the assumption that 4 priests would be around the scepter exactly at the same time, and when the Turtles do switch with Norinaga's elite soldiers instead they certainly were in completely different poses, far away enough to ride horses, who did not get spooked one bit by the lightnings and sudden winds but rode as if nothing happened.
Plot hole: Why is that shark machine even there? The only reason it's there is to help the plot, and I don't see how it is of use to anyone in the corporate world. If the shark just ejects the fish it turns into fish heads out to sea, there is too much chance they will be ruined by carnivorous fish or weather before they are picked up. And fishing companies should know better.
Plot hole: At the very beginning, as the passenger ship is foundering in a powerful storm, the little boy places his kitten in a box and tucks the box inside his shirt just moments before he is cast into the churning sea. Sinking into the depths, the boy and other passengers are presently rescued by Captain Nemo's team of divers, who supply the drowning passengers with oxygen until they board the submarine Nautilus. Once aboard, the little boy opens his hidden box to reveal a wet but very much alive kitten that could not possibly have survived submersion for that length of time in a box that was not waterproof.
Plot hole: The plot that a piece of the Roman spear that pierced Christ ends up in a hidden Mayan temple in the Amazon (which is nevertheless still full of gold etc.) makes no sense.
Plot hole: The fact that Buddy placed the knife and note in the steering wheel of Jerry's car is unrealistic. Buddy first met Jerry in the bathroom after school started and Jerry hasn't gone outside of the school building to his car until this point later in the morning... so there's no way that Buddy could have known which car was Jerry's to pull this stunt.
Plot hole: In the river scene, Betameche states that his pocket knife doesn't have rope, as it's only available on the smaller model. Yet, around 10 minutes later, Princess Selinia is pulling a retracting rope from the pocket knife, allowing them to abseil down. (00:45:00 - 01:00:00)
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.
Plot hole: Although this film is a virtual jigsaw puzzle of flashbacks, the dynamic between Dan, Laurie and Rorschach pretty much defines the movie's continuity in the present. However, when Rorschach is framed for murder and arrested, he goes directly to a maximum-security prison, apparently without trial, conviction or sentencing (all of which would require months of due-process, at least). Even if this lapse of time is some sort of artistic device to rapidly advance Rorschach's story, there is no corresponding lapse of months in the relationship between Dan and Laurie, which runs parallel with Rorschach's story. Either there is no due process for Rorschach in this story, or there is a glaring plot hole.
Suggested correction: Rorschach was a famous and dangerous outlaw. We are talking about an alternate 80's here with Nixon as president and a nation-wide ban on masks (the Keene Act). Rorschach probably faced the death penalty for his long list of crimes, besides the murder he was finally captured for (not to mention to handful of cops he seriously injured whilst trying to evade capture). I don't think it's strange that his trial was quick or not fully by the book. They made sure he was locked away fast and quietly. The justice system probably works a lot faster in a world of masked vigilantes.
Yes, Rorschach was a vigilante; but, before masked superheroes were outlawed, Rorschach was also responsible for sending dozens (if not scores) of far worse criminals to prison, thus benefitting society. This much is stated in the film. His contributions to justice would certainly carry weight, and testimony in his favor would have to be considered in any legal proceedings against him. Also, after his capture, authorities were still trying to assess his mental state, which implies that some sort of due-process was still in place. Rorschach should have received a months-long trial, at the very least.
To be fair, the original, Hugo Award-winning "Watchmen" graphic novel makes the same continuity leap when it comes to Rorschach's fate. Rorschach keeps a secret diary that dates everything, but it egregiously skips over his trial and sentencing, even though the relationship between Dan and Laurie remains consistent. So, we can say that the movie is faithful to the novel, but the novel itself is flawed with a gaping plot hole.
The cops of that city don't care about his past deeds, which includes dropping the body of a criminal in front of the police station with the message "Never." They don't like him. Not even his colleagues liked him. That was a long time ago too, he's been the sole masked vigilante for a long time and I bet the cops just started disliking him more and more for his antics. Thus, a quick trial.
Plot hole: In the series we learn that these creatures take a lot longer than us humans to grow up and that they live a lot longer. They mention that the children are about 900 years old, so a grown-up would be more than 1000 (probably 2000). The series is set around our time (1990s/2000s) and Fjellrose and Erke are very old. Yet the film is set about 100 or 200 years ago, you can tell by the way the humans are dressed and the way their houses are built etc. So Fjellrose and Erke should still be grown up, but they are young children. If they are only 100 to 200 years younger, then they should be much older in the film or much younger in the series.
Plot hole: In the waning seconds of the championship game, the Huskies are down by 2 and UMass has the ball. Not only do the Huskies not intentionally foul to stop the clock, but UMass attempts to run a play and set up a basket when they simply could have dribbled out the clock and won the game. Both these strategies go against what any basketball team would do in this situation, especially in a championship game.
Plot hole: Selene has been kept in a cryogenic tank for 12 years. And for 12 years the scientists running experiments on her very conveniently kept her boots and skin tight suit in the lab. Not just that: they did not keep them in a locker or in a box, but scattered across different shelves of the glass cabinet where they also store test tubes and big bottles of chemicals. Directly in front of them, in fact. (00:10:00)