It is the year 21XX, where humans and Reploids coexist. Peace returned to the world thanks to the efforts of the Maverick Hunters. But one day, the Mother Computer of "Hunter Base", the Maverick Hunters' headquarters, has been hacked by an unknown source. All of its data was overwritten in an instant, and the resulting fake data has sent the whole world spiraling into chaos. The command center sends X out to face the as-yet unidentified enemy, who has resurrected Maverick data from the past