Elm Knight is set in a futuristic world, dominated by the totalitarian regime of the Empire, which hunts down the so-called "Irregulars" - people who have supernatural abilities. The young Rick Chandler is attending the Pilot Academy, where he learns to control giant robots known as "MPS". He discovers that he might be in possession of magical abilities (which would make him an Irregular), and escapes to the desert, where he meets a girl named Selena, who directs him to the base of a rebel organization. Joining the rebels, Rick must face his Imperial superiors, some of which are closely related to him...