- Naruto manga volume 48
Using the knowledge gathered from Jiraiya and other Konoha ninja, Naruto locates Nagato, the emaciated man who controls all of Pain's bodies. Before deciding what to do with him, Naruto asks how Nagato, a fellow pupil of Jiraiya, could have gone so astray. Nagato explains how the various tragedies he experienced in his life led him to desire peace through war. Naruto rejects his conclusion for differing from Jiraiya's ideals and resolves to find peace some other way. To that end, he spares Nagato, as his death would only produce another war. Amazed, Nagato decides to put faith in Naruto's method and sacrifices his life to revive everyone that died in Konoha's defense. In the aftermath the village starts to rebuild, and Tsunade, having expended all of her energy to protect the villagers from Pain, falls into a coma. Danzo Shimura replaces her as Hokage and as his first act orders Sasuke be executed as a traitor to the village.
- Naruto manga volume 42
Though able to capture one of Pain's six bodies, Jiraiya is unable to defeat the other five. Knowing this will be the only chance to learn the truth behind Pain, he sends the captured body to Tsunade and goes to investigate the Akatsuki leader's secret. Jiraiya succeeds and sends his discovery to Naruto and the rest of Konoha yet dies from his injuries. Elsewhere, Sasuke meets with Itachi, leaving Hebi behind to deal with his partner, Kisame. As Naruto and company near their location, Tobi steps in to stall them so that the two brothers can fight uninhibited. The battle between Sasuke and Itachi commences, and Sasuke is able to use his years of hatred to push Itachi to his limits.
- Naruto manga volume 19
Tsunade meets with Orochimaru, though rather than heal him she tries to kill him. Unwilling to see her loved ones if it would mean the destruction of Konoha, Tsunade is drawn into battle with Orochimaru's assistant, Kabuto Yakushi. Kabuto is eventually able to immobilize her, forcing the newly arrived Jiraiya and Naruto to defend her; Jiraiya battling Orochimaru and Naruto fighting Kabuto. Although Kabuto appears in control of the battle, Naruto is able to deliver a perfected Rasengan to his stomach in an attempt to protect Tsunade. Inspired by Naruto's winning of their bet, Tsunade overcomes her restraints and joins Jiraiya in attacking Orochimaru. Unable to do combat with both of them, Orochimaru escapes with Kabuto. Once Naruto recovers, Tsunade decides to accept the title of Hokage, and returns with him and Jiraiya to Konoha.
- Naruto manga volume 11
Soon after Jiraiya starts to train Naruto, he realizes that Naruto is the container of the demon fox. Rather than give him the usual training regiment of preserving his strength, Jiraiya trains him to take advantage of the fox's power. Meanwhile, rumors of an impending invasion of Konoha by the villages of Otogakure and Sunagakure begin to spread, causing the Konoha ninja to begin preparing for the worst. For Naruto, his training consists of being taught how to summon toads to his side during battle. Although he struggles to get the hang of it at first, he is eventually able to take full advantage of the demon fox and summon a toad. Naruto recovers from his training and, on the day of the finals, heads to the location of the final matches.
- Cherry Blossom time
Jiraiya is on hand for the Cherry Blossoms this year