The game starts 20 years after the events of Operation Moongate. After the defeat of Z-Gradt, the mightiest VR and the final boss of the first game, humans continued to battle in their VR's, searching for supremacy. However an unknown AI known as Tangram has awakened and became self-conscious. With the directive to destroy humanity, Tangram infected Earth's mother computer with a virus called "Tangram Virus" and hacked into all VR systems, except for the player's VR. It plans to use the infected VRs to destroy the last human colonies that survived the previous war. The player begins the mission to defeat all VRs and destroy Tangram to stop its evil ambitions once and for all.