I noticed... Pierce looks like Tobias, and sounds like mewtwo. I'm probably being a conspiracy theorist here, but the voice acting of the two is nearly identical. Plus, at the end of Mewtwo Returns, mewtwo was looking out over a city that was fairly obviously New York (Chrysler building and Met Life Building clearly visible). Unova is supposed to be New York. Mewtwo is in New York.
MEWTWO IS PIERCE, MEWTWO IS IN TEAM ROCKET!
Earth is doomed.