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>Dark Souls style multiplayer integrated into the singleplayer
>invade other trainers' worlds and challenge them to battles
>the mechanics would only allow you to invade trainers of similar power (ie, if you have 8 badges you can only invade those with 8 badges, and your highest-leveled pokemon has to be within a certain range of their pokemon levels, to keep it fair)
With nintendo, this would never happen in a million years, but a man can dream.