The Hidden Leaf Village is located within the Land of Fire, one of the Five Great Shinobi Nations. Boruto Uzumaki lives here and he's the son of the village leader, Naruto Uzumaki, the Seventh Hokage. One day, Boruto saves a boy named Denki Kaminarimon, who's being picked on. Denki is physically weak, so he is unable to stand up to the bullies. On his way to the entrance ceremony at the Ninja Academy, Boruto sees Denki again. He notices that his chakra is warped and that he is acting strangely.

Boruto and the others work together to obtain the Reverse Scale from Garaga. But the battle proves difficult, as Garaga has the power to sense the location of its enemies and turn them into stone. In the midst of battle, the team notices inconsistencies in Garaga's moves and comes up with a successful strategy to subdue him. Boruto is seized with a strange feeling and makes Garaga a proposition.

Kakou appears to take the former Tsuchikage back to the village, but Boruto confronts him and they fight. Kakou uses a rare and powerful Particle Style and pushes Boruto to the edge. Meanwhile, Shikadai manages to slip through the Akuta guards and heads for the Hidden Leaf to report on the situation in the Hidden Stone.

Boruto and the others manage to escape Yuuga's barrier, but this time his younger brother Hiruga gets in their way. Like Yuuga, Hiruga will resort to any method to fulfill his mission and uses his jutsu to seal away Boruto and the others. As Boruto tries to break the jutsu, he’s baffled by their rabid fighting style and their willingness to risk their lives.

Boruto and the team are determined to reach Asaka, the eldest brother of the Land of Silence Ninja, before Deepa does. They catch up to him, but Deepa arrives soon after and attacks ruthlessly. They try to counter, but nothing seems to work. In the midst of their panic, Victor appears!

The Land of Water is taken over by pirates, and contact with Denki's Team 5 is lost. The new Team 7 joins up with a unit led by Kagura and sets out for Dotou Island to assist Team 5 and rescue the islanders. However, the unit is made up of Buntan, Hebiichigo, and Kyoho, who in the past had called themselves the “New Seven Ninja Swordsmen of the Mist.” Sarada and Mitsuki go ashore to scout the island while Boruto and the others stay back and watch the situation nearby.

Boruto’s desperate attempts to reason with Ikada fail and he’s unable to change his mind. He prepares himself to give his life to stop the Land of Water and the pirates from fighting. He tells Sarada and Mitsuki that they should not seek revenge if he ends up dying. However, neither of them is able to stand idly by. Will Boruto and his friends manage to stop this cycle of revenge and restore peace to the seas?!

Kawaki and Himawari’s class goes on a field trip to an uninhabited island in order to create new memories with Kae. Because of its distance from the village, there are all sorts of rumors about the island, and bizarre incidents occur, like the disappearance of the food they brought. The field trip suddenly starts to feel unsettling, but under Hana Sensei’s direction, the students try to work together to overcome these difficulties. Meanwhile, Kawaki suspects the assassin targeting Kae might be lurking nearby, so he steps up his watch.

Boruto accompanies Sasuke to a hawk trainer to obtain a messenger hawk.

There, Boruto and Sasuke hear about a person who sells rare animals and decide to investigate. Boruto then befriends a boy named Tsuzura Shitakiri. Because of his mother, Tsuzura doesn’t go to school and has given up on the things he really wants to do. His only friend is a hawk that is unable to fly due to an injury. He takes good care of this hawk in the hope that it can soar the skies once again.

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.

Sasuke is attacked by Meno, the guardian of the Observatory, and then poisoned. Just when he thinks it’s all over, he is rescued by Sakura, who has infiltrated the Observatory as a doctor. She gets Sasuke reassigned to assist her, and they begin their undercover investigation. From the intel that Sakura brings, they learn that Ultra Particles were what cured the Sage of the Six Paths, but in order to find out where it is located, they need to obtain a document called the Map of the Heavens. They decide to search the Observatory’s library for it.

Seeking information related to the Ultra Particles, Sasuke searches the cellar of the room belonging to Zansul, the director of the Observatory, while a messenger of the prime minister is visiting from the capital. To buy some time, Sakura transforms into the messenger. While Zansul is distracted, Sasuke tries to sneak into the basement, but they start to get anxious when things don’t go according to plan. Meanwhile, Zansul tells Sakura something disturbing.