At a Mutant/Human Relations Summit, Henry Peter Gyrich attacks.

Nightcrawler gets a mysterious message. He is informed that his birth mother (whom he never knew) is in trouble. He turns to the X-Men for assistance. Jubilee is baffled that Nightcrawler wants to help the mother who abandoned him -- she has never known her birth parents and feels pretty hostile toward them, whoever they are. Nightcrawler admits there has been pain, but his faith in God has helped him overcome her rejection. The plot thickens when one of the team members recognizes Nightcrawler's mother's voice.

Wolverine thinks back to the time when he fought during World War II and teamed up with Captain America.

Rushing to investigate a disturbance downtown, the X-Men find Sabretooth on the rampage again, but realize too late that it isn't really Sabretooth at all. It is the Phalanx, a voracious alien life-form that can assume the guise of anything or anyone. Before long, the X-Men are all captured, except for Beast, who must find a way to stop the alien horror from devouring the entire Earth.

Snatched from the jaws of the Phalanx by the villainous Mr. Sinister, Beast and Forge search for allies to help them battle the alien threat. Gathering assistance from such unlikely sources as Magneto and Sinister himself, they embark upon a daring and risky plan to free the planet from the clutches of the Phalanx by traveling straight into the belly of the beast.

The origin of Mr. Sinister is revealed.

A mutant from more than half a century into the future, named Bishop, arrives in the present, attempting to change history for the better, by stopping an X-Man from committing an assassination. But between being chased by a future breed of Sentinel, and the details of his mission being fuzzy, he's got his work cut out for him.

Aware of an impending assassination which will create a catastrophic future, the X-Men must deal with threats both outside and within their team.

As the Beast faces an arraignment in court before a mutant-hating public, the X-Men unwillingly take in an old enemy of Wolverine's. Magneto, an old friend turned enemy of Professor Xavier's, attacks a military base in an attempt to unite mutants against humanity.

Prominent anti-mutant and presidential hopeful Senator Kelly is caught in a tug-of-war between Magneto's goal of mutant superiority, the X-Men's dream of peaceful co-existance between mutants and humans, and the mutant-hunting Sentinel robots' goals of global domination.

Having left the X-Men to seek peace in the arctic, Wolverine instead finds himself battling Sabretooth for the safety of an Inuit tribe. Storm, Gambit, and Jubilee investigate an island resort which welcomes mutants, and might be too good to be true.

The X-Men return from Genosha, finding the home destroyed, and Professor Xavier missing. They suspect a super-strong Russian mutant named Colossus, but the real culprit turns out to be someone more human, far tougher, and with deeper ties to the Professor.

An ancient and immensely powerful mutant, known as Apocalypse, creates four Horsemen to help usher in a new world where survival of the fittest reigns.

The former Soviet Union's living weapon, Omega Red, is thawed out by the US Military to deal with an abandoned Soviet nuclear submarine near Hawaii. He asks for his old enemy, Wolverine, and the woman responsible for freezing him most recently, Storm, to accompany him on the mission. Omega Red is offered restored humanity, but once aboard the warhead-filled sub, he reveals his true, deadly intentions.

Cyclops, still in mourning after Jean Grey's "death", quits the X-men and returns to his orphanage home and encounters his friend Sarah. She tells him that a wealthy man has decided to adopt all the mutant children, especially Rusty, but his intentions are to make them his army to destroy all humans in the world so that mutants are accepted. It's up to Cyclops to stop him and save the mutant children.

Fabian Cortez helps Apocalypse escape from the astral plane.

Wolverine must overcome his feelings for Jean, and Storm must overcome her crippling claustrophobia, when the team journeys into the sewer to rescue Jean Grey & Cyclops from a race of hideously deformed mutants known as Morlocks, and their leader Callisto, who wants to make Scott her king.

Rogue seeks a scientist who claims to be able to "cure" any mutant of their powers, unaware that neither he, nor his process, are what they appear to be.

Shi'ar Emperor D'Ken's rise to power via the M'Kraan Crystal is causing a universal implosion. The X-Men, Imperial Guard, and Starjammers find themselves overpowered and unable to stop it. Jean Grey must unleash her destiny as the host of the Phoenix, even at a most personal cost.

A cryptic postcard unleashes a flood of maddening and painful memories in Wolverine that threaten to drive him insane. To keep his mind from being torn apart, Wolverine and Beast travel to the one location that may hold the answers to his hidden past: the ruins of the top-secret Weapon X lab where Wolverine's bones were laced with adamantium. There he encounters other former 'test subjects'—Sabretooth, Maverick and Silver Fox—who are suffering similar mental breakdowns.

Spectacular preparations for Storm's wedding to Arkon proceed quickly. But as Jubilee helps Storm, the new queen, prepare for the wedding, Jubilee can't help notice how badly the palace workers are treated. Meanwhile, Wolverine, Cyclops and Beast discover there are fleet ships bringing slaves from the neighboring planet.

Breaking into the Mutant Control Agency's headquarters to destroy the registration files on mutants, the X-Men lose two of their members against the Sentinels, but eventually gain another.

Magneto & Professor Xavier come face to face for the first time in years amid an exploding factory, while Sabretooth & Wolverine face off in the mansion.

Gambit, Storm, and Jubilee become slave labor on the island resort of Genosha, along with other mutants, forced to help build the new power source for a Sentinel factory. They're given aide in escaping by a mysterious mercenary named Cable.

Bishop & Shard recruit Wolverine & Storm for a time travel mission to save Professor Xavier's life. Except they're from the parallel timeline where he died before founding the X-Men, a world where humans and mutants are in a constant war with one another. Not only do they pair lack a connection to him, but correcting history may put an end to their marriage.