Factual error: The army shoot at Martha's car and you can see sparks where the bullets bounce off her windscreen. But, at that close range, one of those things can go through a brick! I know you're supposed to allow a bit of disbelief, but this is taking it too far.
Continuity mistake: When the Master stands up on the Valiant to announce that he is "the Toclafane's Master", President Winters is visible in the background, only the Toclafane aren't there. In the next shot, they return, buzzing around Winters' head.