Alternate versions of Professor X
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Professor X is Carlos Javier in the miniseries Marvel 1602 (set in the alternate reality known as Earth-311), set at the end of the Elizabethan Era in an alternate universe. In this reality Carlos Javier set up a school for the Witchbreed (in order to train them and prepare them to survive in a world that distrusted and hated them. He hid them away and would only send them out on mercy missions to retrieve other witchbreed who were in danger. When the young man named Werner -born with angel’s wings-was to be burnt at the stake by the Inquisition, Javier sent his team leader, Scotius Summerisle, and Roberto Trefusis to rescue the boy. They did, and brought him back to Javier’s school.
Nicholas Fury, the Queen of England’s spymaster, came to visit Javier at his school and warn him of the danger posed by Elizabeth’s death and the eventual rise to power of King James of Scotland; who had no love for witchbreed. Javier acknowledged the threat, but did nothing about it, though he showed Fury his team of super-powered youths. Fury also asked a favor, and requested that Javier use his powers to read the thoughts of a captured assassin. All Javier could tell him what that he was one of three; another was to kill a girl from the colonies, and the third, the queen. Fury later sent his protégé, Peter Parquagh, to Javier’s school, to warn him that Fury would be coming for him in the name of King James soon, and that Javier should go quietly, rather than risk a war that would have series consequences. Javier agreed, and when Fury arrived with an army of men, he and his students went without a fight.
While captive, Javier joined a discussion with Fury and Doctor Strange-the physician and magician of Queen Elizabeth. Strange told them that the world was coming to an end and the only way to save it would be to launch an attack on the castle of Otto von Doom, and steal away the treasure of the Templars and the survivors from the Four of the Fantastick. Fury disbelieved him, thinking his friend Sir Richard Reed dead, but Javier read Strange’s mind, revealing that Strange thought he was telling the truth; and so it was decided. They traveled upon a ship that Javier’s student Jean Grey lifted into the air with her mind, while Javier bolstered her powers with his own, and they flew to Latveria. Javier and Jean remained in meditation the whole way; keeping the ship afloat, for if they set down they would not get airborne again.
As the battle commenced, Javier led his men. He sent Angel and Scotius down to silence the cannons, while he ordered Roberto to deflect cannonballs, which he himself would try to steer off course via the cannoneer’s minds. His beast-like student Henry he asked to protect the ship from the flying minions of Doom that soon boarded the ship from the air. When the Captain of the Fantastick raged against his stone prison beneath Castle Doomstadt, it freed the members of the Captain’s crew, along with Donal (Thor) and Matthew Murdoch. Donal quickly used the staff that was his greatest treasure, and turned himself into the Thunder God, Thor. When Thor created a massive storm to use against Doom, Roberto used the sudden moisture in the air to freeze the cannons and save their ship. Doom also used Thor’s storm to electrify the golden globe he held-a distraction given to him by Donal-but it exploded in his face; scarring him and bringing him to the brink of death. Victorious, Thor and the members of the Fantastick joined Javier’s crew, and with Thor’s help they got the boat to sea, as Jean Grey had collapsed.
The band of heroes set sail for the New World to fix the tear in time that had created the weather anomalies circling the globe, as well as endangering the universe itself. On the way, Jean Grey’s body finally gave up under the strain of the use of her powers, and as per her final wish, she was flown into the air and vaporized by Scotius’ eye blasts, falling to the sea as ash; but not before Angel saw an image of an immense, flaming bird in the air. Almost to the Roanoke Colony, Javier sensed a trio of ships making their way to the New World; the first, Virginia Dare returning to the colonies with her time-traveling friend; the second, containing James’ men, set to kill Fury; and the third, the witchbreed Enrique with his two children. Enrique was an old friend of Javier’s, later set against him. Javier’s group intercepted Enrique’s boat first, and Roberto encased it in ice to imprison them, while Javier demanded to know what they were doing. Enrique explained that the winds had taken them to the New World, but Javier didn’t trust him.
Javier soon participated in another group discussion; this led by the severed head of Doctor Strange, brought from England by his wife, Clea. Strange told them through his head that the faux-Indian Rojhaz was actually a visitor from the future, Captain America, whose arrival had jeopardized the universe itself. In order to fix it, the heroes would have to return him to the rift. They soon found the rift, and Javier had no choice but to make a deal with his old friend, Enrico, who was the only one with the power to open the rift to put the man back. Enrico agreed without hearing the proposal, but demanded that his own terms be meet when his job was done. As Javier had no other choice, he agreed. Together with Enrique, Thor, and Fury, they opened the rift enough for Fury to drag Captain America through, and it closed, healing the universe permanently. Though instead of reverting things back to the way they should have been, it separated the universe from the original, creating a pocket universe where the out-of-time heroes continued to exist.
Before parting, Enrique explained his terms: that he would head north, and no one would follow him or investigate him; and that Javier would teach his children, Wanda and Petros, but not reveal to them that he was their father, though he would return one day to fetch them. Javier agreed, and parted with his old friend.
In the alternate reality known as Mutant X, Professor X believing in harmony between man and mutant, formed, along with his friend Magnus, the X-Men and led the team towards that peaceful goal. However, the day they fought the Shadow King, everything changed. The good in Xavier was corrupted, and he left the team to explore his powers further. When he returned, it was during an attack by the Juggernaut. Xavier fired a blast at Juggernaut, but it missed and killed Magneto's lover Moira MacTaggert, instead. Xavier left the X-Men for good then, and traveled the world seeking out telepaths, whom he captured and incarcerated around the globe. He joined forces with Sinister in a bid to transfer all the mental energy of all the world's telepaths into himself. To that end, they created the X-Man, and Xavier took control of S.H.I.E.L.D., captured Gambit's adopted daughter Raven, and had Fury attempt to kill the X-Men with a nuclear strike. Xavier met up with The Six in New York, "fleeing" from Apocalypse and the Four Horsemen. However, when Xavier made several attempts to abduct Scotty, Havok was alerted to the truth by Jean Grey and Magneto, and realized who the true villain was. After a pitched battle, Xavier donned his psychic armor, and he and Sinister released a giant replica of Galactus in order to induce fear in the citizens of Earth, on which Xavier could feed his power. In the end, the replica was destroyed and the Six beat the fear phantoms that had comprised it. Xavier turned on Sinister and destroyed him, and X-Man ran off, leaving Scotty and Raven, who with X-Man were to be Xavier's psychic batteries, to help Havok blast away at Xavier. Xavier was knocked out of his armor and fled the scene, but not before unleashing a blast at Havok that hit Brute when he jumped in front of it to save Alex. Fortunately, the blast temporarily restored Hank to his former levels of intelligence, and he was able to devise cures for his friends before the effect faded away. Xavier was later summoned by Dr. Strange to help fight the Beyonder (Goblin Queen) by adding his psychic power to others to help Havok reach a higher plane of reality. While hooked up to the psychic amplification machine, Xavier was about to be killed by Dracula when he was saved by Bloodstorm, who staked her former master.
In the Marvel Zombies one-shot Marvel Zombies: Dead Days, a zombified Alpha Flight attacks the X-Mansion. Storm informs the X-Men during the battle that Alpha Flight has ripped Xavier to pieces. Cyclops, trying not to deal with the fact that Xavier is dead, continues to fight. In the Marvel Zombies/Army of Darkness crossover, a zombified Beast informs Doctor Doom of Xavier's death, and that it was the Zombie Reed Richards who reprogrammed Cerebro to seek out humans.
In the first arc of New Excalibur the team is brought together partly as a response to a clash between Dazzler and a group of homicidal mutants bearing a resemblance to the Original X-Men. It turns out that these are the X-Men of an alternate universe where Charles Xavier is possessed by the Shadow King and has gone on to use his mind-controlled and thoroughly corrupted X-Men to wipe out all the other superhumans. This version of Xavier can walk, and insists that his followers refer to him as 'Master'.
He, along with the Shadow King, are killed by Lionheart.
Ultimate Charles Xavier
In the Ultimate Marvel continuity, Professor Charles Xavier is the world's most powerful telepath, the founder and patron of the X-Men and a world-famous lecturer for pacifism and mutant emancipation. In contrast to his mainstream version, he is publicly open about his mutant status from the beginning and also has limited telekinetic abilities. He leaves his wife Moira MacTaggert, whom he collaborated with to create new therapies and surgical techniques for their mutant patients, and their sick son David to pursue Magneto's dream of a mutant society, but Magneto turns on him, crippling him with a shard of metal through his spine.
Xavier also repeatedly tampers with other people's minds to reach his goals, but he recognizes his flaws. In one instance, Xavier finds that Iceman has told a girl several secrets about the X-Men and is forced to erase the conversation from their minds. He generally believes that reading minds without permission is unacceptable, or so he leads his students to believe. In Ultimate X-Men #40, when Angel flies away, the Professor sends Storm after him because he telepathically knows that Angel is attracted to her. Similarly, Beast questions whether Xavier has made Storm love him.
In Ultimate X-Men #78, Xavier is apparently killed by Cable who was trying to prevent the horrible events in the future. In Ultimate X-Men #80 it is revealed that he is in fact alive, and a captive of Cable in the future. It has also been revealed that Cable has repaired his spine and is training Xavier to fight against Apocalypse. However, once the battle came, Jean Grey manifested as the Phoenix and destroyed Apocalypse. Jean returned everything back to normal, giving Xavier a "fresh start". Xavier reformed the X-Men at returned as the Headmaster of the Xavier Institute.
Onslaught is a sentient psionic entity created from the consciousness of two mutants - Professor Charles Xavier, telepathic founder of the heroic X-Men, and Magneto, self-styled Master of Magnetism. During a battle between the X-Men and Magneto's Acolytes, Xavier uses his telepathic powers to shut down Magneto's mind, rendering him catatonic. During the psionic contact, Magneto's anger, grief and lust for vengeance enters Xavier's consciousness, combining with every long-suppressed negative feeling Xavier had endured during the last 30 years. This aggregation results in the being known as Onslaught. Onslaught kidnaps Franklin Richards, Nate Grey (X-Man), and Professor Xavier, and proceeds to terrorize New York. Then, in one final attack, many of Earth's heroes sacrifice themselves to bring him down. These heroes are really sent into a pocket reality created by Franklin Richards, and come back shortly afterwards.