Although she's only sixteen and looks even younger, Misao Makimachi is already a skilled and competent member of the Oniwabansh? ninja clan. Which is a fortunate thing for Misao, as her onimitsu talents may be all that keeps her alive when a journey in search of the leader of the clan, Aoshi Shinomori, leads her instead into a face-to-face encounter with an even more dangerous man and a plot to overthrow the Meiji government! Quickly enmeshed in the affairs of the legendary assassin Hitokiri Batt?sai, now known as Kenshin Himura wielder of the reverse-blade sword, Misao finds herself pulled into the middle of a deadly intrigue against Makoto Shishio, who is orchestrating the conquest of all Japan, beginning with Kyoto! Get ready for blades to flash and blood to flow as Nobuhiro Watsuki's acclaimed Rurouni Kenshin returns at long last to the world of animation in an epic masterpiece: Rurouni Kenshin - New Kyoto Arc!
Misao seeks out Kenshin, an excellent swordsman who has sworn an oath not to kill. Together the two learn of Makoto Shishio's villainous plan to set fire to the city in a symbolic act of revenge.
Shishio's plan is enacted while Kenshin and Misao help defend the city.