3,700 years after a mysterious light turns every human on the planet into stone, genius boy Senku Ishigami emerges from his petrification into a "Stone World" and seeks to rebuild human civilization from the ground up.

Senkuu has made it his goal to bring back two million years of human achievement and revive the entirety of those turned to statues. However, one man stands in his way: Tsukasa Shishiou, who believes that only the fittest of those petrified should be revived. As the snow melts and spring approaches, Senkuu and his allies in Ishigami Village finish the preparations for their attack on the Tsukasa Empire. Reuniting with old friends and gaining new allies, Senkuu and the Kingdom of Science must stop Tsukasa's forces in order to fulfill their goal of restoring humanity and all its creations. With the two sides each in pursuit of their ideal world, the Stone Wars have now begun!