Story
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The only difference in the story between all three games comes in the one that is in Yellow. The story in Red and Blue are identical. In Yellow, some Team Rocket grunts will be replaced by the anime favorite rebels, Jesse and James. These guys will have the Pokémon that the characters have in the anime, Ekans, Koffing, and Meowth, with the first two evolving into their final forms as you progress through the story.
Gym Leaders also see their teams of Pokémon change in Yellow to fall more in-line with their teams in the anime. If you’re after the game that remains truer to the anime, then Yellow is the one for you.
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