The story is set during the late 21XX. The Reploid rebellions across the past years continue, seemingly with no possible solution. To escape these troubles, mankind has begun the next generation of research and development by constructing an orbital elevator able to take equipment and handwork to the moon which they seek to colonize. This operation is labeled as the "Jakob Project", with the orbital elevator bearing its name, and a Reploid named Lumine is placed in charge of the project. As another part of the project, an advanced generation of Reploids is dispatched to the moon surface in order to work on the project. These New Generation Reploids are able to use DNA data to change their shapes. They are the perfect workers because they can change their shape according to a task, and have subroutines built in to prevent them from going Maverick. (In Mega Man X7, it was revealed that Axl is the first of his kind, a prototype next-generation Reploid.)Everything seems to be running smoothly until Vile, who has apparently been resurrected from his earlier defeat in Mega Man X3, kidnaps Lumine for unknown reasons. It becomes the Maverick Hunters' mission to rescue him. However, what the Hunters do not know is that Sigma has returned. Contained on every single copy chip in these robots is Sigma's own DNA, meaning that the next-generation 'Maverick-Proof' reploids are in fact able to go Maverick. Sigma seeks to remove the "old generation" and repopulate it with his "children". When Sigma is defeated in his palace, Lumine steps in to take the entire operation over and kill the Maverick Hunters. Lumine gloats to the Hunters that, in order for evolution to take its course, he and his fellow new-generation Reploids must destroy both humans and "obsolete" Reploids. After a massive struggle, Lumine is defeated. When Axl walks up to Lumine's body, however, he is shocked as a tentacle springs from it and damages the crystal on his head. As the three different characters ride back down the Jakob Elevator, Zero wonders if he no longer has to fight now that Sigma is dead for good, while X ponders Lumine's words on evolution. Axl is unconscious, but his shattered crystal can be seen glowing with a tiny fragment of a crystal shard.
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| (Part 1,Part 2) |
