Continuity mistake: When Linda and Matt are trying to escape from the freezer, the amount of blood changes on the door lock.
Continuity mistake: Matt is bitten by the gorilla on his hand in the beginning, but in the next scene where the gorilla is strapped to the table, his hand is fine. Shortly after the gorilla is made visible, his hand is suddenly bandaged.
Continuity mistake: In the early part of the movie when Sebastian is checking the stability of the molecule, you see the 3D molecule model explode and the separated atoms pause. When Sebastian turns away, you can see that the atoms are no longer on the same position.
Continuity mistake: The "tranquilliser guns" are really PGP paintball pistols. The little tube on top only has a little hole the size of a paintball you load it, yet in the movie they seem to hold a good amount of large darts in that tiny gun.
Plot hole: The must be a lot of dumb scientists in Sebastian's lab. While defibrillating the invisible gorilla, (s)he becomes completely visible for a moment. However, not once do the scientists consider that applying a mild electrical shock to the system renders the invisible animal visible again - that electricity may be the key to the whole invisibility problem. They don't even comment upon the fact that the gorilla does become visible.
Trivia: A scene in which Sebastian brutally and graphically rapes his neighbor was filmed, but was mostly deleted as test-audiences felt it made Sebastian far too evil. And thus, the version of the scene in the theatrical cut only alludes to the idea without directly showing it. The original scene was reinstated in the director's cut released on DVD and Blu-Ray however.
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