In Mega Man X4, the Repliforce was branded as Mavericks, because it was believed that they had attacked Sky Lagoon, an act really committed by the traitor Maverick Hunter Magma Dragoon. In return for this accusation, their leader, General, retaliated by pushing a movement for Reploid independence, an act that the Maverick Hunters viewed as a coup d'état. In reality, Sigma was pulling all the strings, manipulating events from behind the scenes. A significant blow to the Repliforce was the settling of the conflict, which resulted in the deaths of the two major figures of the organization, Colonel and General. Iris, the Colonel's sister, was also a victim of the conflict.
Two surviving members appeared in Mega Man X5, The Skiver and Mattrex. Both were hunted and killed as Mavericks: The Skiver after being infected with the Sigma Virus, and Mattrex was destroyed due to a misunderstanding (he foolishly insisted on fighting the Maverick Hunters, believing that they intended to retire him even when they outright told him that they wanted nothing of the sort).