Stupidity: In the first action scene where James Franco's body becomes mortally engulfed in flames in his cryopod, when they are using the jaws-of-life-hatch-removing tool to manually free him, there are two very strong men struggling with all their might to pull down on the levers to pop the lid off. A) If you watch closely, one of the guys is only using one hand to pull down on the lever. Hardly a serious effort to crank the thing open. B) Meanwhile, there are three other men present who, rather than jumping in with the other two guys trying desperately to pull those levers down, are instead ridiculously engaged in holding Franco's hysterical girlfriend back from the now-flaming pod. (00:10:00)
Stupidity: At the very beginning of Donnie Yen's fight inside the CIA conference room, security barriers start descending in the room, windows first and then doors, but somehow the exitway for him (which even communicates with the main elevator. Not a secure bunker or anything) starts shutting down a minute later so he can baseball slide past it before it closes. That's pretty nonsensical security protocol. In fact, the whole operation is successful because apparently the CIA Headquarters lack any cameras and sensors in the corridors, security at the lower floors, main doors, perimeter, especially during the top brass meetings (that happen in a room with huge windows with reinforced glass a man can break jumping at it). (00:09:20)
Stupidity: Why didn't they take out the crushed hand guy while the creature was fumbling inside the glove? Plenty of time to do it. Why did no one use a knife to stab the creature?
Stupidity: While Mr. Butler was upstairs taking a shower, Lucas goes into his house, kills his wife, and takes the baby to the school (into Mr. Butler's classroom). Lucas wanted to take away Mr. Butler's family, so all he needed to do was also kill the baby at the house (or leave the dead baby outside on the porch for Mr. Butler to panic while searching). Lucas could have left the house without getting caught for committing a double murder; instead, he keeps the baby alive and assumes Mr. Butler will know he took the baby to his classroom. (01:17:53)
Stupidity: When the crew go to New York they are in the back of a fish truck carrying fish. There's no need for them to do that. So long as the truck looks normal outside to keep their cover, they could have the inside kitted out any way they want. When they get to the fish factory they open up the warehouse in front of the workers to reveal the cars, so the workers are in on it being a front - it makes no sense to actually have fish in the back of the truck.
Stupidity: When Nikki got to the hospital to pick up baby Cali and was asked for ID, she said, "The only thing I have is a teacher's ID." Nikki had her purse with her and drove to the hospital, so it doesn't make sense that she wouldn't have other ID on her, especially a driver's license. (00:19:55)
Stupidity: When sneaking into the hillbilly's house at the end to find her son, Karla for some unknown reason places the loaded sawn-off shotgun (which she stole from the hubby) on the kitchen table and replaces it with a knife. As a result the hillbilly wife finds it and tries to use it on her later.
Stupidity: The villain has a couple dozen able men fully equipped with lights (plus vehicles, obviously), but instead of using them to run after the kid who has a minute tops head start on him and is running blindly in soaked mud fields on her little legs, he uses his manpower to clean up the road from blood, spikes and various other traces of the precise location of the shootout. Rather pointless move since the feds are gonna come anyway in the area because of the communication loss with the convoy, with a decent approximation of their position. It appears unbelievable that he would have his priorities so wrong and just leave the girl to run free like that.