After a dream one night, Takumi discovers his dragon is one in ninety-nine special dragon cards, all of which are called Raikoo, that were given to certain players of the game called Raikoo masters. Soon a group going by the name of RI-IN enters the scene, and all the players, with the exception of the ones in the gaming stores vanish, leaving the world in ruins and dragons in their place. Left behind in this rapidly changing world, Takumi, Raikoo, and their new friends must rally the remaining Raikoo masters together in hopes of restoring Earth and bringing the people back. In order to save the world, Rikyu and Earth join to become one, and the dragons disappear completely to become spirits. Twenty-seven years later, the game resurfaces to a new audience while Reiji, Takumi, and their friends live out fruitful lives.