Battle Lines. Magneto sends his Acolytes to break several mutants out of prison. Meanwhile, the X-Men fight the Brotherhood and find Tildie Soames (a young mutant whose nightmares can manifest into monsters) is attacking the city while still in a coma-like state. Rogue’s true purpose in joining the Brotherhood is revealed and she has to make a choice between her old friends and a new ones. Meanwhile, Bobby sums up the courage to ask Kitty out on a date.
Graduation Day. It’s the final episode! At a Mutant/Human Relations Summit, Henry Peter Gyrich attacks and severely injures Professor Xavier with an energy disruptor. Meanwhile Magneto makes final preparations to take over the world with his mutant army, but on the eve of the invasion Cyclops, Wolverine, and Jean Grey infiltrate Genosha to tell Magneto that Xavier is dying. Magneto halts his plants out of respect to his long-time friend and joins the X-Men as they say farewell to their beloved mentor.
Descent. In London, England’s Victorian era, two scientists, Dr. James Xavier and Dr. Nathaniel Essex, hotly debate Charles Darwin’s theory of natural selection. Essex believes mutants are the next genetic step forward and begins a bizarre experiment involving mutant evolution. The origin of Mr. Sinister is revealed, as Dr. Xavier attempts to stop Essex before he goes too far.