Continuity mistake: There are missing boys in the movie. At the end of The Maze Runner, there are 8 boys that get out of the maze besides Teresa. At the beginning of Scorch Trials, only 7 get in the compound. When Thomas shows the stolen card to the others, there are 6 of them and they all escape with Teresa and Aris. When they get out the mall and enter the city, there are 5 of them besides Aris and Teresa. The last boy (called 'Jack' by cast and crew) dies in a deleted scene, the other two boys simply vanish without a trace or explanation.
Plot hole: The "video history" of the crashed USAF ship makes it very clear that the planet is uninhabited when they "landed". I can understand how a race of apes develops - they had a bunch of them on board. I can understand how a race of humans develops - they are descendants of the original crew. What I don't understand is...where the heck did all the horses come from?
Factual error: In one scene they are playing on an Xbox 360, but the Xbox 360 did not come out until 2005, and the game being played, Gears of War, wasn't released until 2006. The movie takes place in 2004.
Other mistake: There is a scene in which Piter DeVries is talking about the Landsraad (one of the governmental organizations in Dune). Twice he mispronounces the name, saying "Lansdraad" instead.
Factual error: During the final battle, Gordo the tank driver calls out, "Panzerfaust, four o'clock!", as he looks through his periscope. He could not have seen any targets at four o'clock, as the driver's periscope could barely rotate towards the eleven and one o'clock positions, close to the left and right front corners of the tank's hull. The four o'clock position would be near the right rear of the tank.
Plot hole: There is a barely credible explanation for the fact that a guest cannot be injured or killed by being shot in Westworld, but what about the vicious fistfight we see in the bar? People are injured or killed in bar brawls all the time, and this one was incredibly violent. How do they prevent guests from being injured or killed by the cutting and stabbing weapons we see in Medieval and Roman World? Guests are supposed to fight each other, not just robots - they cannot be 'programmed' to lose! Delos is going be sued into bankruptcy within a week of the first guest arriving. Quite apart from the legal position, think about the bad publicity! Who is going to pay the huge fees demanded by the parks owners when the media is constantly reporting on the guests who wound up dead or with life changing injuries?
Character mistake: There is no way on earth that a police officer would shoot a hostage in the thigh to 'take them out of the equation'. Anyone who suggested such a thing would likely be taken out and shot themselves. Bullet wounds to the thigh are often fatal, as an injury to the femoral artery causes massive and frequently unstoppable blood loss. Breaking the femur often leads to fat embolisms as bone marrow gets into the bloodstream and then to the lungs. In fact a broken femur is a life threatening injury in itself, and a shattered femur - a typical bullet injury - would almost always result in a total amputation. You cannot aim carefully enough to avoid the bone or artery as their position in the body varies, (as will the bullet trajectory upon impact). Jack is an experienced cop and would know the potentially disastrous consequences of shooting someone in the thigh. He'd shoot him in the foot.
Continuity mistake: Right after Bennett takes off in the plane, Claire throws a gun to Alice. Between the slow-motion shots, the gun switches position in mid-air before Alice catches it. In the shot of Claire throwing it, the barrel is facing to the right, meaning that it should be facing to the left in the shot of Alice catching it. But it still faces the right when she does. (00:58:30)
Factual error: During the scene where it shows people all over the world, just before the shuttles take off, it is daylight everywhere. It would actually be dark or near dark in parts of the world.
Revealing mistake: The kid in the wheelchair is playing a Game Gear with no game in it.
Continuity mistake: In the scene towards the end of the film where we see Slade's body fall, it falls onto a submerged rock just below the surface of the water and there is a splash of water. In the next shot Tarzan looks down from the cliff above and Slade's body is on a large dry rock, a little distant from where the body originally fell.
Continuity mistake: It was briefly stated in the second film that the T-Virus was created by Dr. Ashford to cure his daughter Angela and that the Red and White Queens were based on her. This movie contradicts that by suggesting that Dr. Marcus created the T-Virus to cure his daughter Alicia, and that the Red/White Queens were modeled after her. While the rest of the movie stays true to the continuity of the previous films, this rather obvious ret-con is still a major continuity gaff.
Plot hole: At the angle of descent and the speed it was traveling (still burning from reentry even), when the space shuttle crashed in the opening of the film, it would not have left much of anything behind. The kinetic explosion that would have resulted would have downed the forest around it for a good distance leaving a crater, and the clean up crews would have been lucky to find any piece of the ship itself still intact bigger than a football. Much less been able to find any discernible remains of the crew. Yet bodies were being taken out in still relatively good condition. And probably most unbelievable is that the glass containers holding the Symbiotes were not even broken.
Continuity mistake: When Indy tries to grab the antidote vial from the table, in the closeup just as the vial falls off the table the camera follows the vial as it lands in the empty area to the left of Lao Che's chair where Kao Kan's chair should be, but it's not, and the rug's edge with wood floor beside Lao Che's chair though it shouldn't be. Then Indy hits Kao Kan who is again seated closely to Lao Che's left, as he should be, and when Kao Kan falls backward we see the rug edge is nowhere near Lao Che's chair, also as it should be. (00:08:20)
Revealing mistake: In the final scene where Fonda and Holbrook are looking over the carrier at the crowds on the dock you can see that only the first rows of people are dressed in period clothes, the rest of the crowd are dressed as they would have been in 1976 when the film was made.