Clockwork Planet was created by Y, a mysterious clockwork master who used gear parts and extensive knowledge to rebuild the lifeless artificial celestial body. His vision and skill transformed the planet, which had been dormant for a thousand years, into a thriving entity.
Despite his exceptional hearing abilities, high school student Naota Miura is an outcast among his peers because of his obsessive tinkering with gears. One day, while showering, a massive container crashes into his apartment. Inside, he finds RyuZU, a remarkably well-preserved automaton, and decides to restore her. What Naoto doesn't realize is that encountering RyuZU will forever change the course of humanity and set the wheels of fate in motion.