Magneto has taken control of the island country of Genosha and established it as a haven for mutant kind. As he builds an army of mutants, he kidnaps Professor X, who he holds responsible for the death of former Acolytes member, Colossus. Colossus actually sacrificed himself in order to release the cure to the Legacy Virus.
Unfortunately, the X-Men have been splintered as a result of recent events. The current team consists of only Jean Grey, Wolverine, and Cyclops. While Scott and Logan infiltrate Genosha, Jean sets out to recruit a new team. Eventually, she assembles Northstar, Wraith, Paulie Provenzano, Sunpyre, Frenzy, and Dazzler.
Upon reaching Genosha, the new X-Men engage Magneto in Magda Square, joined by Cyclops and Wolverine. The battle rages until it is revealed that Professor X has been freed by Amelia Voght, a former coleague of Xavier and current Acolyte of Magneto. Surprised and disheartened by this betrayal, Magneto allows the X-Men to leave, but vows that Genosha will defend the safety of mutantkind by any means necessary. In a parting shot, Wolverine stabs Magneto in the stomach.
Upon their return to the X-Mansion, the new X-men go their seperate ways. Professor X, Wolverine, Cyclops, and Jean Grey are left in pretty much the same situation in which they started.