With the exception of Naruto’s Team 7, which is protected by the Susano’o, all other shinobi have been swept into a dream world by the Infinite Tsukuyomi. Even the Hokage, Tsunade, has fallen into a dream state. She awakens to find herself in the Leaf Village, where she discovers Jiraiya's final book, entitled "Jiraiya Ninja Scrolls," and begins to read...

Tsunade continues to read Jiraiya’s novel. Chunin- and jonin-level ninja have gone missing, and the Fourth Hokage, Minato, orders a search mission with teams of genin led by Guy and Kurenai. Kakashi’s Team 7 is also dispatched, but the hero Naruto Uzumaki, despite being the Hokage’s son, has the misfortune of being labeled a loser.

Tsunade continues to read Jiraiya’s novel. Chunin- and jonin-level ninja have gone missing, and the Fourth Hokage, Minato, orders a search mission with teams of genin led by Guy and Kurenai. Kakashi’s Team 7 is also dispatched, but the hero Naruto Uzumaki, despite being the Hokage’s son, has the misfortune of being labeled a loser.

Team Jiraiya, Shikamaru, and his Leaf teammates are lured into a mysterious village during their battle. A couple children from the village get caught in the crossfire and fall into a cave-in. Yahiko’s team rushes to the rescue, but Shikamaru doesn’t budge. Meanwhile, Naruto and Neji’s teams rendezvous, but a mysterious voice addresses them out of nowhere!

The Masked Man shows Neji and Naruto images of past incidents that occurred in the Leaf Village. Meanwhile, Shikamaru and friends join up with Team Jiraiya to rescue the children. After fighting side by side with the Leaf, Yahiko and the others seem to have a change of heart.

The Masked Man is satisfied that the Hidden Leaf Genin chose the importance of life over their mission, but orders his team to continue their surveillance. Meanwhile, Naruto is frustrated at his inabilities, and recalls why his father Minato sealed the Nine Tails inside of him.

Sasuke and Sakura join up with the others, but the Puppet User appears and blocks their path back to the Hidden Leaf Village. Sasuke wants to bring down the puppets and rush back to report to the Fourth Hokage, but Shikamaru and the others insist on staying and rescuing the jonin.

Jiraiya weakens the seal on the Nine Tails in order to help Naruto learn how to control the Tailed Beast's power. Jiraiya recalls the words spoken to him years ago by the Great Lord Elder. He told Jiraiya that he would have a student, and that his guidance would decide whether the student would save the Ninja World or destroy it.

Naruto joins up with the rest of his comrades, and together they overcome the puppet attack. The masked man witnesses this and is convinced there is a future for the young shinobi. He promises to release the kidnapped jonin and begins to explain the truth, and the situation behind his motives.

Naruto’s strength is recognized by his fellow genin, except Sasuke. But while Naruto enjoys a close relationship with his father, Sasuke’s father, Fugaku, constantly compares Sasuke with his older brother Itachi and barely pays attention to him…

Sasuke takes his frustrations out on Naruto and the two begin to fight, this time with their respective new jutsu. Minato steps in just before it turns into a disaster. From this encounter, Sasuke realizes that he is nowhere equal to Naruto in strength and joins the Leaf Police Force, determined to beat him one day.

Three years have passed since Sasuke joined the Leaf Police Force, and he's now lieutenant. But his abusive Police Force has only increased anxiety within the village, and the Uchiha remain in poor regard. Now that his training with Jiraiya has ended, Naruto returns to Hidden Leaf Village and has an explosive encounter with Sasuke in the middle of town!

Sasuke leaves the village in order to obtain power from Orochimaru. Naruto and his friends learn that Sasuke is in danger and decide to go after him. To keep this a secret, only Naruto and Shikamaru set out on this mission, but on the way the duo are accosted by masked ANBU shinobi!

The Anbu who attack Naruto and Shikamaru are agents sent by Danzo, who had promised Orochimaru that he would deliver Sasuke safely to him. Luckily, Neji, Lee and Tenten rush to their aid in the nick of time! Meanwhile, Hiruko reveals the truth behind the incident involving Hizashi

Naruto reaches the tower Sasuke was heading for, thanks to Neji, Lee and Tenten deterring the agents from the Foundation. But it's too late—Sasuke's already made contact with Orochimaru! Naruto passionately tries to reason with Sasuke, but ultimately their powers collide!

Sasuke has left with Orochimaru, but Naruto is not about to give up. Determined to bring Sasuke back, he returns to the village with Shikamaru and the others. Meanwhile, Yahiko appears in the village, calling himself “Pain" and seeking revenge for the Hidden Leaf’s betrayal.

Seeing Hinata almost die triggers Naruto’s anger and he goes into Nine Tails State. Naruto's power is enormous, but Pain releases his jutsu to seal him away. Hatred consumes Naruto as he tries to break the seal. With Naruto unable to calmly control the Nine Tails’ power, the village steadily heads toward destruction.

Several months after Pain’s attack, Jiraiya arrives with intel regarding the Akatsuki, who are attacking shinobi villages and kidnapping their Kage and jonin. He also reveals that Sasuke is working with them. Naruto is determined to bring his friend and comrade Sasuke back, once and for all!

Naruto wants to bring Sasuke back to the village, but Sasuke burns with a desire to bring Naruto down. Why is Sasuke so confrontational, and how did his feelings toward Naruto develop? The truth rises to the surface during Sasuke’s relentless attack. Where will this battle lead? Find out in the conclusion of the “Jiraiya Ninja Scrolls.”