X-Men - Season 4

Trevor Fitzroy and Bantam travel back in time to 1959 and kill Professor X.

Failing to stop the assassination of Xavier, Bishop, Shard, Storm and Wolverine travel forward to the future.

Morph feels he's finally ready to return to the X-Men. But his homecoming is interrupted by the return of the Sentinels, the robotic mutant-hunters who nearly killed him the last time he faced them.

The long hidden secret patient of Muir Island, a reality-warping mutant teen known as Proteus, escapes from his 15-year long captivity, and wreaks havoc across Scotland searching out his father.

When Proteus discovers that his deadbeat dad is a prominent politician, he storms the Union Hall right in the middle of his dad's campaign speech on 'family values.' Proteus tells his father that he is his son, his father denies it and runs off in horror, crying for help. Angered at his father's reaction, Proteus creates havoc, but Professor X later calms him down, and he stops the rampage. Then he goes back to Muir Island with Moira MacTaggert.

Weary of battling for mutant supremacy, Magneto offers to transport all mutants to an orbiting asteroid named Asteroid M where they can live peaceful and human-free lives; however, Fabian Cortez forces Magneto into an escape pod and launches him into space.

As Magneto plummets helplessly to Earth, Fabian Cortez assumes control of Asteroid M and sends hundreds of missiles towards Earth. Meanwhile, Rogue goes to help the X-Men and tries to find a missing Gambit. Magneto frees himself and returns in time to destroy both the missiles and Asteroid M. Everyone escapes before the asteroid is destroyed and they all return home (Gambit included!) Meanwhile, Cortez is rescued from the descending asteroid by Deathbird... and Apocalypse!

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.

When Oracle, the psychic member of the Imperial Guard is kidnapped by Apocalypse, Professor Xavier deduces his scheme involves capturing mutants with telepathic abilities. The X-Men are split up to track them down before the villains can, which puts Wolverine and Shard in the middle of a scuffle between Archangel and a ninja named Psylocke.

After swiping the government's own time machine, Cable ends up recruiting the X-Men on his mission to destroy Apocalypse's source of immortality at its creation.

Cable & the X-Men destroy the Lazarus Chamber. They then use Cable's computer and Cerebro to track a homing device on the Professor to the control axis where Apocalypse reveals his plan to use the psychics to destroy all time, and recreate a universe, where he will rule unchallenged. Feeling that he was deceived by Apocalypse, Magneto attacks him when Cable arrives and joins the attack. Apocalypse begins draining the psychics which causes time and history to start to disappear. Bishop sees this and releases the psychics. Sinister and the Nasty Boys retreat. Apocalypse and his Horsemen are defeated by the heroes. Using Cable's time-spaceship, everyone else is returned to present time at the X-Mansion. Cable then travels back to his own time.

Jubilee's first Christmas with the X-Men doesn't go exactly as she expected, when she, Storm, and Wolverine become involved with a mission to save the Morlock child known as Leech.

Wolverine, losing control, quits the X-Men and returns to the rural Japan of his younger days, in an effort to find himself. He works peacefully with a former spiritual teacher, the monk Oku, to build a temple. But the neighboring village is about to be attacked by bandits, led by the merciless Silver Samurai, unless payment is made. Some of the villagers want to resist, and ask Wolverine for help. Wolverine is torn. This is just the sort of thing he had wanted to leave behind. Wolverine bests the Samurai in single combat by taking advantage of Samurai's habit of teleporting in behind him: Wolverine anticipates the move and disables the teleportation device, humiliating Samurai.

Rogue's childhood sweetheart, the boy whom she put into a coma when her powers first manifested, returns to her life unexpectedly. But what strange connection does he have with the bug-like aliens Wolverine encounters in the desert?

When Cyclops flies solo to a tiny, western, desert community to see an old friend, his plane is blasted out of the sky. Injured and unable to use his powers, he struggles into town, only to discover his friend is missing and the town is caught in the grips of a militant, mutant-only, anti-human hate group: the Children of the Shadow.

When Professor X suffers a slight concussion, his powerful psychic mind is suddenly open to manipulation. The Shadow King takes advantage of this and takes possession of Xavier, leaving his mind trapped on the Astral Plane.

Scarlet Witch, Quicksilver, and Magneto are lured and captured by the High Evolutionary and his New Men. They imprison them along with Wolverine, who was spying on Magneto. The Evolutionary reveals that he wants to use their genetics & powers to create a new breed of beings, which he demonstrates by transforming Wolverine into a werewolf. He also reveals that Magneto is Quicksilver and Scarlet Witch's father. Magneto admits to the twins Quicksilver & Scarlet that he regrets abandoning their mother, his wife Magda. Beast and Professor X locate them as Magneto breaks the others free when the High Evolutionary escapes. Wolverine reverts back, and the twins walk away from Magneto despite his effort to reconcile with them.