Sumire's wish comes true and she joins the Scientific Ninja Tools Team, leaving only Wasabi and Namida on Team 15. A new member, Tsubaki Kurogane, a young girl who hails from the Land of Iron, joins them.

Boruto and the others can't help but feel that Kokuri is hiding something from them. Meanwhile, Tsukiyo, a lieutenant in the Mujina Gang who's also imprisoned in Hozuki Castle, schemes to get Kokuri transferred to Hozuki Castle II, where his henchmen lie in wait.

After completing his mission to guard Tento, Boruto is assigned a new B-rank mission with Sarada and Mitsuki. Boruto is excited to start but he finds the rare X Card that he had wanted in his pocket. Realizing that this was from Tento, he goes to their hotel and learns that Tento's life is in danger.

A training class on Medical Ninjutsu is to be held, and each team must send a representative. Sarada is chosen for Team 7. Despite Sakura being a Medical Ninjutsu specialist, Sarada doesn't have a knack for it and being a participant fills her with anxiety.

Leaving Mitsuki in the care of Yubina, a doctor and friend of Mugino, Boruto and the others go to a black market in the Land of Silence, a dangerous and lawless gathering place for disgraced ninja. Team 7 make it to a shop located in the most dangerous district whose owner knows all the latest news. After a scuffle with the bodyguards, the team finally gets ready to ask the shopkeeper for information.

Boruto and Sarada begin intensive training after experiencing defeat. Boruto wants to make his Rasengan even stronger and seeks out Kakashi. Sarada is mentored by her father, Sasuke, in the use of her Sharingan. Meanwhile, Konohamaru and Mugino have been authorized to visit Victor's company in order to investigate his motives.

Shikadai, Inojin, and Cho-Cho's Team 10 is assigned to a joint mission with Shinki, Yodo, and Araya from the Hidden Sand. The mission is to find and retrieve an Otsutsuki Puppet that Shikadai had once fought. Team 10 arrives in the Land of Wind and decide to stop at a certain shop. On their way, a man passes them who piques Shikadai's interest. Upon arriving, a chilling scene confronts the trio.

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.

Team 7 has arrived at a high-tech research center along with Katasuke. There, they end up running into some familiar faces. The mission has ended without incident, and Boruto is ready to head home. However, there’s more they must do. Boruto and his friends end up cooperating in a test-run of a Scientific Ninja Tool that is under development. Boruto is unhappy at first, but as the test run continues his feelings start to change. As that happens, Team 7 is given a new urgent assignment from the Hokage.

After Ao's defeat, Koji Kashin appears before Team 7 and attempts to ensnare them in a sealing jutsu and eliminate them. Konohamaru breaks free and takes him on, but during the battle, the mark on Boruto's hand activates.

Kawaki starts living in the Uzumaki household, and at first he’s bewildered by their peaceful everyday life. Eventually he’s put to ease by the cheerful and welcoming atmosphere of the Uzumakis. Meanwhile, Boruto is furious that Kawaki has broken a vase that his little sister had made for their mother, fanning the flames between them. As a fellow wielder of the Karma, Kawaki makes a proposal.

Delta uses her destructive beam that can neutralize any regenerative power. Undaunted, Naruto forcefully suppresses it with a Giant Rasengan. He then turns up the power of his jutsu and propels it towards Delta. Unfortunately, Delta has been fitted with Scientific Ninja Tools and is able to absorb any jutsu, no matter how powerful… What will be the outcome of this battle?!

Kawaki has lost an arm in the battle against Delta, so he is given the prosthetic arm made for Naruto. Though the prosthetic can't move without Naruto's chakra, Naruto shares some of his chakra with Kawaki. Kawaki is surprised by this gesture and remembers how Naruto said that chakra is the power to form bonds with one another. He asks Naruto to train him in Ninjutsu. Meanwhile, Delta informs Jigen that Boruto also has a Karma on his palm. Upon hearing this, Jigen smiles…

The reformed Team 7 launches a series of attacks on Boro. But even when they land successful attacks, Boro instantly revives himself with his extraordinary regeneration powers.

Amado defects from Kara. Desiring to seek asylum in the Leaf Village, he takes Shikadai hostage. If granted asylum, Amado promises to provide the Leaf Village with every bit of knowledge that he has about Kara.

Naruto, proposes that the Chunin Exam be held to raise morale after Isshiki’s attack. Everyone is fired up for the exam, eager to show off the results of their training and experience they’ve gained from missions.

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!

Kawaki starts to believe that being a genin is not for him. The Seventh Hokage gives him a last shot and assigns him to join Shikadai and Cho-Cho on a mission to protect Mozuku, from the Land of Calm Seas, and escort him back to his homeland. Will Kawaki be able to cooperate with his comrades and fulfill the mission this time? Meanwhile, Team 7 is on another mission and they pass a group who seem to be ninja in disguise…

Cho-Cho is injured in an attack by a mysterious ninja and the item that Mozuku had been holding is stolen. Captain Shikadai realizes that this was no ordinary guard mission, but one that makes them the targets of other ninja. He immediately decides to turn back toward home. But Kawaki feels for Mozuku, who was entrusted with the item that would save his people, so he ignores Shikadai's orders and pursues the ninja along with Mozuku. All alone, Kawaki faces a powerful enemy who uses a strange jutsu. Will he be able to protect Mozuku and safely return him to the Land of Calm Seas?

While on the lookout near Dotou Island, a giant mobile fortress appears before Boruto and his friends. Kagura orders Boruto, Kawaki, and Buntan to sneak into the fortress to gather information. Sarada and Mitsuki are able to join up with Denki and the other members of Team 5, and together they begin their plan to save the people of the island.

As Boruto and the others ready their plan, they learn that one enemy unit is heading to the village ahead of the rest. Since they haven’t finished making preparations, the village will be in danger, so they hurry to evacuate everyone. Kagura worries that they won’t have enough people to fight. Just in case, he releases the curse placed on Buntan, Hebiichigo, and Kyoho, temporarily setting them free. Hesitantly, they agree to fight alongside Kagura and Boruto.

Boruto and his friends manage to triumph over Funamushi, but they aren’t able to savor the victory. Everyone is having a difficult time believing Denki and Iwabe are still alive days after being captured. Meanwhile, Boruto discovers a hidden side of Funamushi when he is targeted by people who looked up to the pirate, as revenge begets more revenge. Boruto has always continued to push forward until now, but this causes him to question the point of fighting.

Cho-Cho and Inojin end up making ramen to help a Rogue Shinobi and ramen shop owner by the name of Shingo Kumano who they met on a mission. They tell him that his ramen doesn’t taste bad, but that it’s missing something. Shingo asks them for advice to make it better. The former ninja takes advantage of his experience to develop a new menu. Will he be able to complete his ultimate recipe?!

Mitsuki worries when Mikazuki the cat goes missing. Mitsuki, Boruto, and Sarada are assisting with the village patrol at the request of the police department, which is having difficulty investigating a strange series of attacks. From morning until night, Mitsuki spends his days on patrol, when one day, he sees Mikazuki being cared for by another person and being called by another name!

Boruto, Sarada, and Mitsuki hold a special lecture at the Academy for freshmen like Kawaki and Himawari. The teacher in charge, Hana, will also speak, but unlike Boruto and his team—who have actual mission experience and flashy jutsu like the Rasengan that appeal to the students—she can only use conservative jutsu, so she feels inadequate as a teacher and becomes depressed. A mock training activity prepared by the trio causes the class to become deeply divided, and Hana struggles to bring the class together again.

The Academy students are at the hospital to visit Hana, who struggles to remember the day of the attack. At the Hokage's palace, Kawaki is relieved of his mission for not reporting the presence of the assassin in time.

The assassin targeting Kae has finally been revealed. Because of their previous clashes, Kawaki knows they are a powerful foe. He decides to chase after the assassin by himself to prevent putting any more students in danger. But Kawaki finds it difficult to do that without knowing where the assassin is; what’s more, his classmates desire to work together to chase down the assassin and save Kae. And so, the entire class begins their pursuit!

Sasuke and Sakura work together to gather information concerning the Ultra Particles. Unfortunately, there is still much they don’t know, and they are unable to figure out where to get answers. Eventually, Sasuke finds a clue to the whereabouts of the Ultra Particles from something his cellmate mentions. Meanwhile, Sakura discovers a hint to unraveling the mystery of the Map of the Heavens from a game called Star Lines. Having finally gathered the information they need, Sasuke and Sakura try to obtain the Ultra Particles. However…