Batman almost immediately figures out how to liberate the Pokemon from Ash's control (presumably by destroying the Pokeballs or something). He does so and the Pokemon tear apart their former master and take a steaming Pokedump on the remains.
The victorious, morals-off Batman then takes a shattered Pokeball to his lab, spends a week synthesizing the Grandmaster Ball and becomes the Greatest Pokemaster of Them All by capturing all the heroes and villains in the DCU and turning them into mindless supervegetables who can do nothing but repeat their own names/kill people when Batman tells 'em to. THE END
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