Stupidity: When the army base gets overrun the girl jumps on a soldier and starts biting his neck. The woman soldier that's with him aims her gun at them but doesn't shoot, knowing full well there's no hope for the man. There is utter carnage going on all around them and instead she tries to help him and gets attacked in the same way. This could be a plot hole as well as the girl in question is the one that holds the key to survival.
Stupidity: Sook-Hee and Hideko manage to escape Japan with the money by disguising Hideko as a man named Go Pan-dol, including forging a passport with Hideko in the disguise, then getting onto a ship headed for Shanghai. Once on the ship, Sook-Hee removes the moustache Hideko was wearing as part of the disguise and then throws it into the ocean. Even if they have escaped all trace of Kouzuki and plan on creating new identities once they have settled in Shanghai, they still need to prove that she is the man in the forged passport that she is posing as if they are to enter the country when they arrive in it. Getting rid of the moustache could potentially ruin the disguise and give away her real gender. Surely it would be a smarter idea to get rid of the moustache once in Shanghai. (02:14:40)
Stupidity: During the movie, the bad guys keep the main character alive and free to roam the facility at will (even if they made him sign an incriminating form at the very beginning stating he's an inmate) doing absolutely nothing to restrict his freedom till the very end - he even retains personal effects like his broken Rolex and lighter, his wallet full of cash! He breaks into every forbidden area, picks up fights, damages property, escapes multiple times and 'corrupts' the person the whole facility is built for. He is worth absolutely nothing to them and has nobody waiting for him or that will look for him.
Stupidity: The chef/cook of the house has his rifle, and he knows Morgan lost control and pretty much killed everybody on the premises. He comes face to face with her, but he lowers his rifle instead of taking the subject (Morgan) out with a shot. There is no logic here but to only pro-long the film. There's no reasoning with a scientifically created subject which is killing everybody it comes into contact with. (01:09:00)
Stupidity: When Doss buried the wounded soldier, leaving one eye out made no sense. It did nothing to help him. All it did was make it easier for the Japanese to spot him. It would've made sense to leave his nose and/or mouth out, so he could breathe. He did not need to see.
Suggested correction: A person who is unable to see is more likely to panic. When Doss buried the wounded Marine, he asked him to take a deep breath and trust him. By leaving one eye open, it allowed him to see the gravity of the situation as IJA soldiers walked by and maintain eye contact with Doss who hid under a dead Marine. After the suspicious IJA soldier bayoneted the body over Doss, he looked directly at where the wounded man was buried and kept walking. It was a crude method, but it likely saved them both.