Middle school students Nagisa Misumi and Honoka Yukishiro are the epitome of dissimilarity. Popular with their classmates, Nagisa is the school's energetic star lacrosse player, while Honoka is the soft-spoken "Queen of Intelligence."

As unrelated as they may seem, Nagisa and Honoka live double lives as the "emissaries of light": Cure Black and Cure White of Pretty Cure. With the assistance of two fairies, Mipple and Mepple, the girls fight against the Dotsuku Zone—an evil force that has invaded the Garden of Light. In order to prevent the Dotsuku Zone from taking over the Garden of Rainbows as well, the pair must work together to find seven Prism Stones and restore the Prism Hopish to drive out the vile forces.

With strong foes standing in their way, Nagisa and Honoka learn to work together and harness their newfound powers in order to save the worlds from further ruin.