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It'll be on the 3DS. It shouldn't be, but GameFreak hates knowing that Nintendo owns their only lucrative franchise and puts a LOT of effort into maintaining as much control as possible, probably more work than they actually put into the games. Remember when the 3DS was out for years and GameFreak released four Pokemon games on the DS because fuck it, whatever, right?
They'll put as much on the 3DS as they can before they actually start getting in trouble.