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Jean and Scott get married. Newly elected President Kelly has freed Beast and added him as part of his Presidential cabinet. With the President's newly found pro-mutant point of view, the public feels betrayed and react with violence.

Scott and Jean are on their way to a secluded island for their honeymoon, but gets cut short by Mister Sinister. As Morph continues with his revenge plans, he starts losing his motivation. The Friends of Humanity have began to rally.

Omega Red, the destruction machine from the former Soviet Union and a sworn enemy of Wolverine, is thawed and sent two miles beneath the ocean to salvage a disabled, toxic nuclear submarine threatening to break up near Hawaii.

Mr. Sinister send Mystique to destroy the X-Men while Professor X is lost in the Savage Land. Rogue starts having painful visions of a mysterious woman which are driving her crazy when the mysterious woman possesses Rogue's body.

The Friends of Humanity attack a hospital for the blind that Beast is working at. Wolverine plans on tearing them apart from the inside. Beast and one of his patients, Carly, fall in love together, but Carly's father is a mutant hater.

In the year 3999, Apocalypse steals Cable's computer and time-travels to the past in order to end his struggle against inferior mutants permanently.

The next phase of Apocalypse's plan begins: he targets and abducts the most powerful psychics in the universe.

Cable appears in the past to stop Apocalypse, but is not concerned about saving the psychics much to the mutants' chagrin.

The final battle between mutants and Apocalypse takes place.

Nightcrawler finally meets the mother who gave him up... Mystique.

Wolverine has strong feeling for Jean Grey. Storm must overcome her claustrophobia as the X-Men venture into the New York sewers to rescue Jean Grey and Cyclops from a deformed race of mutants called the Morlocks.

Iceman, a former X-Man, is caught sneaking into a federal warehouse. He is captured by his former team, but Jubilee tries to help him.

After leaving the X-Men, Wolverine looks for solitude in the arctic, but comes across Sabretooth, who's been tracking him. Jubilee, Storm and Gambit do some investigating at an island resort that seems to be a safe haven for mutants.

An ancient and immensely powerful mutant called Apocalypse plots to destroy the world to bring in a newer one.

Morph and Wolverine investigate and discover that the Sentinels are back.

A mutant travels back in time to avert a future catastrophe.

Gambit sets out to prove his innocence by thwarting an assassination he supposedly caused. Can he succeed?

Professor X and Magneto confront each other for the first time in years. Meanwhile, Wolverine and Sabretooth come face to face.

The origin of Mr. Sinister is revealed, as Professor Xavier attempts to stop Essex before he goes too far.

As the Beast waits for his arraignment in court in front of an anti-mutant public, Magneto tries to break Beast out of jail, only to receive resistance from Beast. An old enemy of Wolverine's pops up, and the X-Men take him in.

Quicksilver of the mutant team X-Factor and his sister, the Scarlet Witch of the Avengers, learn from their dying father, that they were adopted. Magneto, who is looking for his estranged wife, may hold a clue to the Maxinoff twins' past.

Fabian Cortez kidnaps Jubilee because Apocalypse is trapped in Astral Plane and needs a host body.

On the verge of Magneto's final stand against humans, the X-Men request him to save a dying Professor X. What choice will he make?

Sam Guthrie's parents have contacted Professor Xavier about their son's mutant powers.

Jubilee and a group of children are trapped by a cave-in in the caverns underneath the Xavier Mansion, she tells a fairy tale to kill time while they wait to be rescued.