Plot hole: The opaque red lined map that Otomo retrieves from his first fight is ridiculous. Why would people who know where the hidden base is be carrying around a map on them (which shows a route so basic that they'd have to be brain-dead not to be able to remember it anyway) just so that conveniently one of their enemies can get it?
Continuity mistake: After the bird of prey first fires on Enterprise, Kirk is thrown right out of his chair to his left and lands on the floor. The camera pans around the bridge briefly, seeing the rest of the crew staggering and holding onto things. In the very next shot Kirk is back in his chair shouting "back off, back off" and the crew back in their positions as if nothing has happened.
Other mistake: Towards the end of the movie, when Superman drops Gus off at the coal mine, Gus begins talking with the coal miners about him and Superman. He then rips open his shirt (as if he had a Superman costume on underneath). How did Gus know that Clark Kent tore his shirt like that in order to change into Superman, or keeps his suit under his clothes at all? The only people who know this fact are the ones who have seen the transformation from Clark to Superman, i.e. the audience.
Continuity mistake: When Ken Wheatley is pointing his tranquilizer gun at Zia after he shot Owen, he puts the gun in his left hand and uses his right hand to wave his men down, but mid wave, the camera cuts to a different angle and he is waving with his left hand while holding the gun in his right hand. (00:30:00)
Other mistake: When Sugimura is looking for Kotohiki, he activates his scanner to see if she is nearby. The scanner shows her location, but fails to show either Mitsuko or Kiriyama, who show up quickly after.
Factual error: When Koba steals an Armored Security Vehicle class M1117A Guardian, he kills the gunner from the turret and then somehow manages to use the 240B attached to the turret. First, it takes three men/apes to operate the ASV, and second, the ASV cannot be operated from the turret. In that scene, it is assumed that Koba is operating the entire vehicle, something most humans cannot do or do not know how to do. Let alone a 240B, MK19, or .50 Cal M2 Browning. The ASV turned in the direction of the wall, which was the only way that the Apes were able to breach the city walls. This is also kind of an important plot hole blunder too because if it were not for the breach from the ASV, the Apes would not have won. The other blunder from this is that the gunner would not have been exposed from the hatch, since the ASV was using .50Cal and MK19. No need to use the 240B.
Factual error: The Apaches in the film are depicted with dual machine guns on each side of the cockpit, mounted directly on the windows. In real life, Apaches cannot mount such cannons, and instead use an M230 Chaingun in a turret underneath the helicopter, which the film Apaches have, but for some reason do not use. (00:49:25)
Continuity mistake: When Peter and MJ hug on Tower Bridge he gets some blood from his face onto the left shoulder of her jacket. From other angles there's no blood.
Other mistake: When Deckard visits the Tyrell Corporation, he prepares to test Rachel with the "VK" machine. He is shown putting his briefcase of the table and lifting the "VK" machine out and onto the table. If you look closely, the "VK" machine is already on the table and Harrison Ford is miming the lifting - there is nothing in his hands! (00:19:45)
Other mistake: During the Battle of Teth (the pillared jungle planet), the AT-TE's shoot the ledge at the top and there's not a single mark on the ledge afterwards, despite being hit with several joules worth of fire.
Continuity mistake: While this movie is so bad and full of mistakes, its barely worth finding them all, one stands out in the history of movie mistakes. One of the officers on board the ship, Lt. Lamont, is killed by the villain. A few scenes later she shows up on the bridge as an extra.
Factual error: When they're first entering the whaling camp, a penguin startles Miller. That penguin was a black-footed penguin, which is a bird native to much warmer climates. If that little guy had actually been in Antarctica, he would have died within minutes. (00:20:40)
Continuity mistake: When Marlon stocks the vending machine, the camera (inside the back of the machine) shows him stocking the 1st row with brown-wrapper candy bars. He starts stocking the 2nd row with yellow-wrapper bars; Truman interrupts him for a minute (during which Marlon doesn't touch the bars at all). When Marlon continues, the yellow bars have changed to something darker (it's not just a different camera view; even barcodes are different). After another brief interruption, Marlon continues again, and the yellow bars are back. (00:35:00)