The game follows a separate story arc from the anime, in which the Resistance must protect Earth from a furious assault by the Vexos who are slowly taking over in order to destroy all of the Resistance's havens and Drago who contains the Perfect Core that the Vexos are searching for.
In Story Mode the player travels the world to collect Core Fragments while evading security drones. Bakugan are used to disarm laser traps and other security devices.
Battle Mode uses a fighting engine similar to Dragon Ball Z games and ability cards that are used to make powerful attacks. Bakugan can be captured, of which twenty can be used in Battle Mode.