After ratting out his Mafia cohorts, Giovanni Manzoni and his family enter the Witness Protection Program and relocate to a sleepy town in France. Despite the best efforts of their handler to keep them in line, Giovanni (now called Fred Blake), his wife and children can't help but resort to doing things the "family" way. However, their dependence on such old habits places everyone in danger from vengeful mobsters.

A group of five Genesect have invaded the big city and pose a threat to the supply of electricity, which attracts the attention of the legendary Pokémon Mewtwo. Satoshi, Pikachu and his friends must come to the rescue when the powerful leader, a red Genesect, faces Mewtwo.