The story of Bakumatsu Renka Karyuu Kenshiden unfolds during the first year of Tokugawa rule when two factions battle for dominance - those supporting the Shogunate and those backing the Emperor. At the heart of this conflict is a young girl named Shizuki Rin, who grows up in a dojo that harbors secrets. Among these hidden truths are the violent actions of the Shinsengumi, as well as bishops and children with dreams of power and strength.