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The trainer class you choose on your trainer card will give certain buffs/debuffs to your team. You only get about 5 classes to choose from at the start, and do sidequests to earn more from NPCs.
Since we'll never get slot machines again, replace them with arcades with space shooter minigames and other junk that earn you tickets with which to get fabulous prizes.
Classic-style RPG bosses that you need to use three or more Pokemon at once to fight against. Maybe something like a haywire robot Pokemon, or a berserk legendary or some shit, iunno.
Wearable hats for Pokemon. I don't care about costumes or nothin', just hats are fine. I just want to put my Quagsire in an old-timey British police officer's hat and call him Constable Quag.
Bring back hard mode please