Aha, I rememberd to more small complaints
1: What I simply
looove in the Mirage comics is the long and silent fight scenes (all four vs Triceratons, Leo vs Shredder...). Having a lot of talk while they're fighting isn't good.
2: The invincible Turtles vs. The Foot. In specifically the second movie, the Turtles win every little battle against the Foot. It doesn't make the heroes look good, it makes the Foot look really bad. You learn that they only get the kids that are in the absolute top among fighters, and then they never land one punch in their fights?