Ultimate X-men #10 Marvel Comics (2001)

The X-Men are in the hands of the Weapon X program, and John Wraith intends to make them over in the program's own dark image, beginning with a mission that will force Marvel Girl to make a unspeakable choice! Meanwhile, Wolverine desperately tracks his teammates and enlists the aid of the recently resigned Nick Fury!

Jean Grey kills a man on a mission.

Wolverine is brought in but that was his plan.

Weapon X is using Professor X as a weapon.