X bol a Pokemon Trainer dieťa prodigy. Ale teraz sa depresie a hide v jeho izbe avoiding everyone-including jeho najlepší priateľ Y. Upozorňuje na svoj domov za Legendary Pokemon Xerneas a Yveltal, ľad by Team Flare, Forces X outside... Now what? Y and friends attacked by Legendary Pokemon Yveltal pri X a Blue sú attacked by Legendary Pokemon Mewtwo! Čo máš Mewtwo ísť do Pokemon Village, a sanctuary for refugee Pokemon? And why is Mewtwo so angry? Mysterious test subject trapped inside the Essentia Expansion Suit regains consciousness...