Dr. Fuji, wanting to find a way to restore life by cloning, goes to Guyana after finding evidence of a shrine dedicated to Mew, the world's most powerful - but now said to be extinct - Pokémon.
Giovanni, the leader of Team Rocket, funds Fuji's research in return for an enhanced living replica of Mew. Finding a Fossil of Mew, Fuji and his team create Mewtwo. A confused Mewtwo asks himself who he is, what he is, and where he came from. Just then, Mewtwo wakes up in a stasis tube in one of Fuji's laboratories, where the scientists study him. Mewtwo breaks out of his test tube; Dr. Fuji tells Mewtwo that he was made by humans and is a clone, much more powerful than Mew. Mewtwo is angry that the scientists see him more as an end result to their project and less of a sentient being so he destroys the lab and kills all the scientists. Dr. Fuji says to himself that he succeeded in creating the world's most powerful Pokémon before dying at the hands of Mewtwo. Then, Giovanni arrives in his private helicopter and offers to help Mewtwo focus his powers. Mewtwo takes up the offer, and is put in a suit of armor.