Revealing mistake: After defeating the giant Tin Suits, Link catches Zelda while she's falling from the air. In this shot, you can see where a trap door will open up in the floor below Link. Now, it is pretty normal to see doors or other objects that will move being a slightly lighter color than the surrounding things that are the same color in older cartoons, and that in itself is not a mistake. However, this time it is so blatantly obvious because the lighter area on a gray ground is a light pink.
Revealing mistake: As it first shows Ganon on his horse with a rope around the king, look closely at his leg. For the first second or two, it is disconnected from his thigh and below the horse's wing. It then suddenly jumps up to where it's supposed to be.