In a sequel to the Hulk Vs, Nick Fury asks Wolverine a "favor" to once again fight against the Hulk in exchange for keeping the X-Men's real identities and the reality behind the Xavier school secret. However, Wolverine finds that there is more than Fury is letting on when Wolverine and the Hulk encounter the real monster terrorizing the Canadian Rockies and attacking the S.H.I.E.L.D. agents dispatched there: the Wendigo. Wolverine keeps the Wendigo monsters busy while Banner searches for the cure. At the end, Wolverine gets revenge on Fury by awakening the Hulk claiming "Hulk wanted to thank you too."

Professor Xavier warns the X-Men about an impeding event that wipes half the mutant population: Nitro will self-detonate in Genosha. The Brotherhood "rescue" Nitro from a government prison against his will and use Psylocke to control him, planning to use him as a weapon. The X-Men chase the Brotherhood in order to prevent Genosha's destruction.

In the future, Professor X is captured by the Sentinels. Along with Domino, Bishop, Hellion, Marrow, and others, the Professor plans to break free from his captors. Meanwhile, Wolverine and the other X-Men search Bolivar Trask's old lab for any info on Master Mold.