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If you are using them for the ranked VGC battles on the actual games, it doesn't matter since they don't follow Smogon rules, however most tournaments (Non-Nintendo Hosted) or player battles will follow the Smogon format since it'd typically the most balanced setup compared to VGC rules. Personally I prefer people following the smogon tiers and rules to prevent unfair plays.
Smogon system has the whole tier systems and sleep and species clause etc.
VGC is the system Game Freak made up that's basically all legendaries are banned and you can't use more than one of the same item on a team and more than one species, everything else goes.
Also horde shinies are as common as the safari since you are encountering 5 at once so your odds are pretty much x5 more than usual encounters.
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I try to follow Smogon rules since they seem fair and balanced. I should have figured finding a shiny like that so easily would be too good to be true. I guess I'll trade it or something.