This game begins with a meeting between Samus, three other bounty hunters, and the Galactic Federation about a computer virus caused by Phazon infecting their organic supercomputers. The four bounty hunters must try and stop it. But in the middle of the meeting, some Space Pirates crash into the frigate, the GFS Olympus, and stop the meeting. Samus and the other bounty hunters go to stop both the Space Pirates and the virus. They learn a Leviathan meteor is headed for Norion. Samus heads to the planet and brings Generators A and C online, with a different hunter activating Generator B, powering a laser.