With reports of monsters terrorizing the reactor at Mount Nibel, the Shinra Electric Power Company dispatches their elite fighting force SOLDIER to investigate. Accompanied by fellow SOLDIER First Class Zack Fair and a small contingent of company guards, the war hero Sephiroth is to assess the condition of the Mako reactor at the behest of the company. In Nibelheim, the village that the reactor powers, Sephiroth discovers the source of the monsters and the origins of Shinra's legendary Jenova Project.

Running through the woods months later, Zack is no longer the hero he once dreamt of becoming. He flees from the General Affairs Department of the Shinra Electric Power Company, better known as the Turks, who desperately seek to bury the evidence living within the two.