* In the scene where Matori puts the coffee on Giovanni's desk, the yellow stripes on Giovanni's uniform are missing.
* When Team Rocket capture Pikachu and Axew, Pikachu is shown to be held in the left arm and Axew in the right. Later they are shown in the opposite arms.
* After Iris says "Axew isn't yours. It's mine", Pikachu's right cheek is missing.