After Sasuke reverses Orochimaru's body-switch with his Sharingan, he releases one of Orochimaru's test subjects, Suigetsu. Determined to put together a team to achieve his goals, he decides to request Suigetsu's assistance. Suigetsu agrees, but only if he's willing make a detour to the Land of Waves first.

Having become genin, Jiraiya, Tsunade, and Orochimaru are assigned to the future Third Hokage's platoon. Watching Sarutobi's space/time ninjutsu, Jiraiya becomes absorbed into learning it. One day, Jiraiya loses his way and stumbles upon Myouboku Mountain. There he meets the Great Toad Sage who predicted his arrival. See the origins of the Toad Sage Jiraiya!

After Madara finishes telling Sasuke about his past, he reveals the unfathomable truth about Itachi's massacre of the Uchiha Clan. What really happened on that night? Why did Itachi join Akatsuki? And for what reason did he really spare Sasuke's life?

Naruto manages to find Shiranami's location but he discovers that the Shiranami he found was actually the ninja bandits disguised as him. Hotaru finds the real Shiranami where the latter convinces Hotaru not to have the forbidden jutsu removed, and takes her back to the Tsuchigumo Village. After Naruto is saved by Utakata from the ninja bandits, the two return to the Tsuchigumo Village, where they find that Shiranami has everyone in the village under his control.

In a flashback of Naruto and Sakura's, Team 7 is on a mission to take an ostrich called Mr. Ostrich to his home. They arrive at a village where they see a swordsman named Tsukado who has a vendetta to carry on a man named Katazu who killed his distant relative Shikazo. Tsukado fails to defeat him so Naruto decides to teach him unusual revenge lessons. Katazu has then took his brother's identity and attracted Shikazo's pursuers while Kageki and his family went into hiding. Tsukado decides not to kill him and ends their years of fighting though Kanabun wants them to keep fighting. The swordsmen, Team 7 and Mr. Ostrich chase the Kanabun Gang out of town.

A female spy, Hanare, from the Hidden Lock Village (Land of Key) is caught by ANBU pretending to be a musician. She is interrogated. However, the interrogation proves unsuccessful. Slowly, her past is revealed and so is her relationship with Kakashi. Team 7 spy on the two as they go around town, under the impression that the two are dating. After The Lock Village keeps a Leaf Village ninja hostage, they exchange Hanare for the ninja. It is then revealed that Hanare has a special ability, causing a large chase to occur. In the end, Kakashi lets Hanare free. The musician seen at the beginning entertaining Konoha ninja reminds Kakashi of Hanare which prompts the flashback.

Naruto stands before the Raikage and begs him to forgive Sasuke. Will the Raikage listen to what he has to say? Later, the Five Kage Summit gets underway. Mifune suggests that the Five Great Nations should form the first alliance of its kind; but also nominates Danzo to be the leader. How will the other Kages react to the latter proposal?

One of Sai's clones tells Naruto the truth surrounding Sasuke, something that Sakura couldn't bring herself to do. Before Naruto can even comprehend what Sai just said, they are interrupted by Gaara. What additional bad news concerning Sasuke does Gaara bring for Naruto?

Hinata’s father Hiashi summons the Hyuga clan to discuss the role they will be playing in the upcoming Fourth Great Ninja War.