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Okay, except for one problem: the anime isn't canon with the series' storyline, only the games are. That's why Jessie and James aren't in G/S/C or HG/SS, Red is still called Red and not Ash, and Brock and Misty aren't following him. Thus, keep the Pokemon theme song on the cartoon where it belongs.
Xbox Live GT - Maxx the Slash | PSN ID - Maxx_the_Slash Tatsunoko VS. Capcom: UAS - 3395-4961-3275