Naruto and Shikamaru deliberate on the results of the Chunin Exam that were left unsettled due to the Otsutsuki attack. Sasuke returns, looking for clues about the Otsutsuki Clan.

Konohamaru and Boruto set out again to rescue Remon but find they’ve arrived a little late. Soma has broken the seal and begins his resurrection. Boruto and Konohamaru try desperately to stop this, but none of their weapons and ninjutsu work against him. Watching them, Remon is inspired to carry out her vow and employ the method her ancestor used long ago to seal the monster.

Urashiki is determined to get Shukaku's chakra and attacks ruthlessly. Boruto and Shinki form a united front and unleash each of their special jutsu. However, Urashiki proves to be a formidable opponent that neither Sasuke nor Gaara could defeat. Will Boruto and Shinki be able to find a way to counter him?

Boruto and Naruto resume their training. Meanwhile, Sasuke is at a loss for words when Jiraiya expresses doubt about his identity. However, Jiraiya says that he will not pry if they join forces to come up with a strategy to defeat Urashiki.

It is discovered that a wooden tag used to prevent unauthorized entry into the medical unit has been stolen, and the prison guards begin a search for the culprit. Until the offender is found, all prisoners are locked in their cells. Once the culprit is found, each of their cellmates will be forced into solitary confinement. If this happens and the team becomes separated from Kokuri, their mission could be jeopardized.

Boruto rushes to save Tento, but Shojoji the leader of the Mujina Gang blocks his way. Boruto dodges to protect Tento, but Shojoji and his Corpse Clone Jutsu prove to be too powerful. In the midst of all this, the mark on Boruto's palm reacts and paralyzes him.

Boruto and the others are involved in a robbery incident at Fushuu Castle, and on top of being branded criminals, they are being pursued by a gang from the Land of Silence. Although they're determined to capture the true culprits, the gang keeps attacking and hampering their efforts!

Separated from Boruto and Sarada, Konohamaru battles Victor. But someone unexpected shows up to fight alongside him. Meanwhile, Boruto and Sarada are trying to defeat Deepa to even the score, but he still proves to be a formidable opponent despite all of their training.

Kawaki collapses and is tormented by nightmares from his childhood. As a child, Kawaki endured an abusive father, until one day a man appeared before him— none other than Jigen, the leader of Kara.

Naruto has been pulled into a different dimension by Jigen. There he encounters Sasuke, who tells him that Jigen is a dangerous person and that they must do whatever it takes to defeat him immediately. Naruto and Sasuke work together to defeat Jigen in a fierce battle, but they struggle against Jigen's advanced fighting abilities and mysterious jutsu. Meanwhile, Boruto gets a bad premonition when his Karma starts acting up, and so he quickly returns home with Mitsuki. Kawaki and Sarada are there, worried about Naruto's safety.

Naruto and Sasuke are greatly overwhelmed by Isshiki's abilities. As a last resort, Kurama offers Naruto a chakra mode called Baryon Mode, which grants him immense power. The intensity of this power, however, could end his life.

In order for Kawaki to become a genin, it’s decided that he can take a special test that differs from the one held at the Ninja Academy. A D-rank mission is deemed to be equivalent, so Kawaki is assigned as an additional member. However, he is difficult to work with, ignores the need for teamwork, and acts on his own—giving his teammates a hard time while disrupting the mission!

During the battle against Funamushi, Kagura is fatally injured. Boruto becomes enraged and charges at Funamushi, activating his Karma. When the Funato squad retreats, Kagura gives Boruto and the others one final request.

Boruto and the others return safely to the Leaf Village. While Naruto informs Team 7 of events that have occurred in the Hidden Mist since they left, Boruto and Kawaki get into an argument over whether or not Ikada should be punished.

Kawaki and Himawari participate in a training session in the forest near the academy. The class is split into three-person teams and Kawaki ends up on a different team from Kae. Anxious about losing sight of Kae, Kawaki is unable to focus and ends up burdening his assigned team. Kae is lured away by a mysterious person and disappears. Fearing that she is in danger, Kawaki and Himawari rush to find her.

Tsuzura’s hawk has suddenly been sold, so he does what he can to get his precious bird back. Hearing what happened, Boruto ignores Sasuke and rushes to help.

Code worships Isshiki Otsutsuki, who was defeated by Boruto and his friends. In order to meet a certain person, he visits the facility that formerly belonged to Boro. Like Kawaki, Code miraculously survived the experiments intended to help select a vessel for Isshiki—and he possesses greater power than even Jigen. He has vowed revenge against Boruto and Kawaki for destroying Isshiki.

Meanwhile, Claw Marks left by Code are discovered just outside of the Hidden Leaf Village. While the Hokage and the others take precautions, Boruto proposes an idea to Kawaki.