The end of the Maverick Wars was brought along by the creation of the Mother Elf, a program with the capability of reversing the Maverick virus within any reploid. However, a scientist working on the project, Dr. Weil, stole the program and re-coded it with intent to exert control over the world's reploids. This was in conjunction with his creation of a devastating weapon, Omega, and smaller copies of the Mother Elf's core program.

[He pauses. He's just reciting history, almost like he was reading from a textbook, but that strange melancholy rears its head again.]

The losses were catastrophic. Most reploids and nearly half the human race was lost in the ensuing battles with Omega. After four years, Zero and I managed to capture and seal the Dark Elf, along with Dr. Weil himself.

He and his creation were punished accordingly for their crimes.