In the shot where Cybertron is shown being flung back across space, the planet is animated with cel-animation, as opposed to being painted onto the background, like it usually is. But the drawing is incredibly unrealistic, and its detailing shift from frame-to-frame, making the finished sequence look rather cheap.
In one shot, Prowl's face is missing. He is only drawn wearing an empty helmet between his shoulders.
Megatron's ship explodes with such a force, that it sends the whole planet of Cybertron hurtling through space. This, in itself, would be already impossible, but the explosion has no effect on Earth, even though it happened close to it. Not only that, Megatron survives the whole thing, with only scratches - he was on the ship when it blew up, and he is definitely not invulnerable.