Natsume, who lives a daily busy life among humans and spirits, reunites with his former classmate Yuki by chance. At this moment, Natsume meets a woman called Yorie Tsumura who appeared in the memory of a spirit whose name was returned. Knowing about Reiko, she now lives peacefully with her only son, Mukuo. But the town where the mother and son live seems to be hidden by mysterious spirits. On their way back from investigating the incident, the "demon seed" that parasitizes on the body of Mr. Nyanko grows into a tree and bears fruit overnight in the courtyard of the Fujiwara family. For some reason, Mr. Nyanko who eats the fruit that resembles his own shape is split into three....