Seconding what Rust said.
Celebi is to Raidon as Pikachu is to Ash. It's not something to worry about in terms of god-modding, it's really just because Rust likes Celebi a lot and in the RPs I've had with Rust before, he's never really done anything that off the deep end in terms of god-modding with Celebi. If Celebi wasn't even a legendary, I don't even think we'd be having this problem.
I mean heck, I love Emolga and my character Noah has one. If Emolga was a legendary, would we be in the same kind of situation here?
But in essence, I wouldn't worry about it. Trust me... you've got bigger, badder things to worry about from Team Aqua. ;)
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