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1943, during the invasion of Sicily, three soldiers, (American privates Fisk (the grandfather of The Kingpin) and Nicholas Fury, and Canadian soldier James Howlett), attempt to loot a house. Military police arrive to arrest them, and all three are subdued. Fisk is grazed by a bullet, while Fury and Howlett, despite the latter's protests that he's Canadian, are shipped off to separate unknown locations.

Howlett awakens in a tank of water inside the Weapon X complex. He escapes the complex, but is fatally shot as he nears freedom. Miraculously, Howlett's wound heals completely and he is recaptured. Dr. Cornelius, Weapon X's head scientist, explains that in attempting to create their own version of Captain America, Weapon X accidentally discovered a genome that, when genetically altered, grants the person carrying it various abilities based on their DNA. He calls these altered humans “mutants", (with Howlett as "Mutant Zero"), and states that mutants will be how humanity survives

Later, a teenaged Erik Lehnsherr visits the Weapon X complex and sets Wolverine free, letting him know that his name is James. When Magneto's mother tries to stop him, he murders her and proclaims that he hopes there "is a hell." Before his mother's death, she justifies her work with Weapon X by declaring that she only wanted to find a cure for Erik and the others.