After their battle with the mysterious assassin group and the demons in the previous season, the main characters of the series can finally take a break and live their daily life. However, A mysterious clan of ninjas who call themselves the Black Spider clan comes to plan a terrorist attack towards both Kyoto and Edo to bring down the Shogunate. Led by a mysterious man called Fuma, the ninjas began causing trouble for the main characters. It is revealed that this man also hides a dark past about his ninja life during the 10th shogun's regime. Saya finds out that he is also the one that killed her mother. Not only that, a mysterious group of assassins who called themselves the Naraku also appeared to cause another trouble for the main characters. The Naraku and the Black Spider ninjas are revealed to be working together and they were employed by a mysterious force of evil who sought to overthrow the shogunate due to personal grudges.
