A new student named Mitsuki from the Hidden Sound joins Boruto's class. A student named Mitsuki has transferred into Boruto's class from Hidden Sound Village. He overwhelms Iwabe in sparring and shows his genius by solving difficult problems. However, Boruto and the others are unable to tell what he is thinking. Meanwhile, someone who has been doing repair work on the school, suddenly goes berserk. Boruto and the others rush over. Another side of Mitsuki emerges as he starts muttering strange words.

Under his father and grandfather’s guidance, Boruto spars with his aunt Hanabi. Boruto has sought this match in order to win acceptance from his father, but no matter how hard he tries, he can’t activate his Byakugan in any form. He begins to doubt that he even saw the shadowy warped chakra at all, and feels even worse when people begin to think he lied. But then Boruto sees another person being manipulated by the mysterious shadow.

Boruto nicknames the mysterious shadow “The Ghost” and is excited when he and his friends Shikadai and Mitsuki decide to solve the recent “Ghost Incidents.” Shino secretly lends Boruto a helping hand by giving their class an assignment to research different workplaces. Meanwhile, Sai, who once served in The Foundation of the ANBU Black Ops, makes a big discovery while investigating the same incident under orders from the Hokate.

During a tour of workplaces for their school assignment, Sumire, Wasabi Izuno and Namida Suzumeno get wrapped up in the Ghost Incident and are hurt. Boruto feels bad that he wasn't there to prevent their harm, and becomes more determined to solve the case. With the help of Tayori Kuroyagi the postal worker, along with Shikadai and Mitsuki, the team scans the village more closely. Then Shikadai and Mitsuki realize one possibility from something Boruto says casually.

The ghost incident that threatened the Hidden Leaf Village is over, and now Boruto is unable to awaken the mysterious power he used. Things return to normal in the village and the Academy, but one thing still troubles Boruto and his classmates...

Sarada is in shock after Sakura is captured by Shin's jutsu. Even Naruto, with his exceptional tracking skills, is unable to locate her. Then Sasuke discovers countless Sharingan embedded in Shin's arm. Following clues gleaned from Shin's arm, they come upon the laboratory of the heinous Hidden Leaf criminal, Orochimaru, who has been conducting research on Forbidden Jutsu. There, Sarada meets her father's former partners Suigetsu Hozuki and Jugo. She then asks Suigetsu to look into who her real mother is.

The Hidden Leaf Village is filled with excitement upon the arrival of the Kage for the Five Kage Summit. Boruto knows that security is tighter than usual, but he still plans on pulling a big prank. Meanwhile, Sarada has found a new goal, to become the Hokage, and trains hard. Behind closed doors, the Five Kage discuss highly classified intel that Sasuke has obtained involving Kaguya Otsutsuki.

Kagura unlocks the storeroom to let Shizuma take the Mist Blades. The New Seven Ninja Swordsmen begin an insurrection, the end goal being to turn their village back into the Blood Mist Village! News of the rebellion reaches Chojuro and Mei, the current and previous Mizukage. They are determined to execute the perpetrators, along with Kagura, who aided them. In order to change Chojuro's mind, Boruto makes an astonishing announcement.

Inojin has loved to draw since he was small, and his ninjutsu speciality is the Super Beast Scroll. But one day, he suddenly loses his ability to use his jutsu! Puzzled, he talks to his father, Sai, who uses the same jutsu. Even though Sai is sympathetic, he doesn't give Inojin a way to overcome his slump. Instead he suggests that his son enter into a children's art contest, which Inojin halfheartedly does.

Team 7's original mission evolves into a rescue operation after Kiri is kidnapped. The team must face a formidable genjutsu user as well as a skilled sword user. Following Konohamaru's orders, the team successfully rescues Kiri. But Konohamaru is captured and the trio must battle the enemy alone while protecting Kiri.

Shikadai and Ryogi became friends playing shogi, but lately Ryogi hasn't been coming to their usual meeting place. Shikadai's became worried about his friend's behavior the last time they met, but he's kept his concerns to himself. Ryogi is also worried about Shikadai, but is tormented by memories he can't forget.

Boruto overhears remarks being made about his father and him, adding to the hurt because Naruto has broken his promise to be home for Boruto's birthday. Shortly after, Team 7 is given a mission to capture a gang of thieves targeting the Thunder Train, who are hiding out in a town near the Land of Fire's border. But when Team 7 arrives at the town, they find something is not quite right with one of the captured thieves.

Boruto manages to perfect his Rasengan and begins training under Sasuke. He’s an extremely strict teacher because Boruto’s unfocused and only thinks about surpassing his father, and keeps looking for the easy way out when training gets tough. Iwabe, Sumire and the others also decide to take the Chunin Exam and turn in their applications. Hoping to show off his skills to Naruto, Boruto decides to apply as well. Meanwhile, the Otsutsuki Clan set their sights on Killer Bee!

The match between Cho-Cho and Shinki of the Hidden Sand begins. Confronted by a foe who is unbelievably calm and menacing, Cho-Cho assumes a seriousness that she rarely reveals as her teammates watch and cheer her on. Boruto and Shikadai's match is next, and the moment nears when the two friends will face off against each other for the first time!

The movie studio where Team 7 and Team 10 have been assigned to is attacked by a mysterious ninja. The lead actress is wounded and Tomaru, the lead actor, picks Cho-Cho to be the stand-in! Tomaru's flirting has Cho-Cho on Cloud 9, but Sarada and the others worry that the lovestruck Cho-Cho has lost her focus on the mission!

Boruto and Sarada sneak out of the village and head to Orochimaru's research lab to find clues about Mitsuki. After evading the ninja guarding the entrance, they get in. But what they observe at the facility and hear from Orochimaru makes Boruto realize that he never truly knew Mitsuki. Meanwhile, the village finds out that Boruto and Sarada have gone in search of Mitsuki, and Shikadai and his Team 10 are assigned a tracking mission to bring back them back.

The White Snake Sage tells Boruto to bring back the "Reverse Scale" from Garaga, a troublesome snake. Boruto and his friends head deeper into Ryuchi Cave and are confronted by a giant serpent. It is Garaga, the very one they seek, but its sheer power has the gang backed into a corner. Meanwhile, Moegi reports that Mitsuki's disappearance might involve someone who has access to crucial village secrets.

Boruto is injured, unconscious and unable to continue. Everyone thinks about returning to the Hidden Leaf. However, being close to the Land of Earth, a surprise attack is highly possible. As a precaution, Inojin and Cho-Cho set out on recon of the surrounding area.

In order to get out of the barrier, Boruto desperately searches for his heart of stone, but he has little success. Then he encounters Sekki, one of the Genbu Three that participated in the recent Chunin Exams. Sekki has also come to the training ground in order to find his heart of stone. Seeing their predicament, Ohnoki tries to help them.

Ku appears once again to provoke and attack Boruto. Meanwhile, reevaluating his true will and intent, Ohnoki prepares for a fight to the death in order to stop Ku from doing any more harm.

Boruto comes across an eating contest, held by the popular eateries in the Leaf for Parent and Child Day. Many families participate but they don’t know that this event has an outrageous hidden motive arranged by the organizers…

The Nara clan’s chief elder tells Shikadai to quit being a ninja and become a politician in order to increase the reputation of the clan. Shikadai is hesitant, but considers his father’s position and accepts. Boruto and the others are surprised by Shikadai’s sudden decision. Shikadai takes a hiatus from ninja missions and decides to study to become a politician.

Team 7 is sent on a mission to help capture a jewelry thief, but they lose track of them. In the thief’s place, a cat appears. Boruto and the others decide that Mitsuki should take care of it for the time being.

A few days into the mission, Mirai visits the hot spring with Tenten, Guy’s former student. But that moment of relaxation is interrupted by Guy yelling about a ghost.

With Shikadai as captain, Boruto, Iwabe, and Wasabi form a special team for a mission to find and bring back a rare flower that only blooms for a short period of time. What should have been a simple mission ends up progressing slower than expected as the team continues to argue.

Due to Sasuke’s frequent absences from the village, he hasn’t had time to train Boruto. When Sasuke sends a message home, Boruto takes a peek at its contents and learns that Sasuke will be making a stop at a certain location in the Land of Wind. Determined to be trained by his mentor, he sneaks out of the village.

Boruto and Shinki continue on toward the Hidden Leaf Village to fulfill the mission entrusted to them. But Urashiki suddenly appears. Working together, Boruto and Shinki manage to slip away from Urashiki, but escaping him completely proves to be difficult.

Boruto becomes fascinated by Jiraiya, Naruto's former mentor. Inspired to train, he goes to Sasuke's house, where Sarada mentions Jiraiya's novel. Convinced that reading the novel is the fastest way to learn about Jiraiya, the search for Make-Out Tactics begins!

At Jiraiya’s suggestion, Boruto and Naruto train to synchronize their chakra, but this turns out to be more difficult than expected. Boruto then runs into Neji and decides to talk to him. Sasuke, upon seeing a discouraged Naruto, is unable to ignore him.

Enko Onikuma—one of Boruto's former classmates and a member of Team 40— was possessed by a Summoning Beast as a child. Now, she can manifest its enormous power. But lately, she hasn't been able to control her power, hindering her work on missions. Meanwhile, Ibiki Morino approaches Enko and tells her that she'll be working under him going forward.

Boruto and Mitsuki worry that their mission is in jeopardy, since Kokuri is scheduled to be transferred to Hozuki Castle II. They decide to escape with Kokuri before he's moved. As they discuss their strategy with Sarada, their cellmate Kedama overhears them

Boruto and the team are waiting for the escape boat when Tsukiyo appears. Boruto and his team fight desperately in order to protect Kokuri, but they're tormented by Tsukiyo's jutsu as time threatens to run out on their prison break!

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.

Boruto and Team 7 are tasked with a mission to find a missing researcher of a medical equipment company in a distant nation. Mugino, a jonin who has a keen sense of location, comes on board to guide and assist Team 7. Without wasting any time, Boruto and the team start their mission with Mugino.

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 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.

Iwabe, Denki and Metal pay a visit to Boruto after he lands in the hospital from overtraining. There, they meet Nattou Nishiki, a young boy who is also a patient. Rambunctious and brash, Nattou easily manipulates the three into getting him an autograph from a certain ninja feared by everyone!

The mysterious organization known as the Kara is about to take one of their plans to the next stage that involves a crucial item called a “Vessel.” However, having his own ambitions, Victor secretly panics as he tries to keep his true objectives hidden from Jigen, leader of the Kara, and the other core members

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.

Koji Kashin retreats from battle after seeing that Boruto has a "Karma" mark on his hand. Shortly after, Team 7 discovers a battle site where a boy lies unconscious. Much to everyone's shock, the boy possesses the same mark as Boruto.

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.

Kawaki goes into town with Naruto to get a new vase to replace the one that he broke. On the way to the Yamanaka Flower Shop, they are joined by Sarada. Unaccustomed to peaceful everyday life, he snaps at Sarada’s attempts to talk to him, and almost attacks a child for bumping into him.

Kawaki's Karma starts to act up and Jigen, the leader of the Kara, appears before him! Not only are Naruto and Kawaki surprised, but so is Koji Kashin, who had been secretly keeping an eye on Kawaki. Jigen tries to take back Kawaki by force. Upon seeing this, Naruto battles Jigen to protect Kawaki! A direct confrontation between Naruto, the Seventh Hokage, and Jigen, the leader of the Kara, finally begins!

News has spread throughout the Leaf Village that a cloaked man has stolen data from the archives. Team 10 decides to launch their own investigation to find and catch the thief.

Koji Kashin continues his battle with Jigen, whose body is revealed to have been taken over by Isshiki Otsutsuki. He continuously hits Jigen with a barrage of attacks in an attempt to drag Isshiki out of his body and destroy him.

Finished with their battle against Isshiki, Boruto and the others return to the village. Thanks to their work, the safety of the village has been maintained. Boruto is terrified by the fact that Momoshiki once again took over his consciousness during battle. Meanwhile, Amado provides some new information concerning Code, whose powers surpass Jigen. As that happens, something appears before Code, who has been keeping watch over the immature Ten-Tailed Beast in Kara’s possession!

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.

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…

Traveling merchants have been attacked by vicious robbers. Wasabi, Namida, and Tsubaki of Team 15 are sent to the site of the incident to investigate. Tsubaki finds a clue that seems to point to samurai from her homeland, the Land of Iron. Furthermore, the clue belongs to a certain person that makes Tsubaki tremble in fear. That person is someone that she respected long ago, a fellow apprentice with whom she trained and honed her swordsmanship with—someone with whom Tsubaki shares a certain fate!

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.

The ship carrying Boruto, his friends, and the people of Dotou Island is dead in the water. A shipbuilder Kajiki and his apprentice Ikada happen to pass by and offer to repair the ship at an island of shipbuilders where they live. Upon arriving on the island, Boruto and his friends try to do whatever they can to help while waiting for their ship to be repaired. Meanwhile, in the seas near the Land of Water, a clash between the pirates of the Funato Clan and the Land of Water is becoming unavoidable.

Despite children being present, Funamushi fights fiercely with disregard for the damage he causes. Meanwhile, Araumi is informed by his eldest son Isari that his adopted son Tenma has died in battle. With his daughter already hovering between life and death, he explodes with rage. He declares that he will be taking full command in the battles to come.

Araumi is furious about the loss of family members and many of his subordinates during the battles so far. He officially declares war against the Land of Water. Upon hearing this, Mizukage decides to fight him to the bitter end. As war between the Land of Water and the pirates becomes inevitable, Boruto is confused by Ikada’s decision to fight the Land of Water. He does everything he can to prevent any more casualties, and Sarada and Mitsuki assist him in his efforts.

Boruto, Sarada, and Mitsuki go meet with Ikada, who has now sided against the Land of Water. Boruto tries talking to Ikada as a friend to get him to stop fighting. But since Boruto is responsible for what happened to his sister Seiren, Ikada refuses to listen. Even still, Boruto persistently tries to reason with him. Ikada coldly proposes a certain condition.

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.

Kawaki and Himawari’s class will be putting on a play about the Legendary Sannin for the school festival. The students rehearse wearing prop headbands, but when Eiki discovers that Kawaki brought a real headband, he tries to expose Kawaki’s true identity to drive a wedge between him and Kae. Kawaki can’t afford to let Kae find out about his mission. Will he be able to prevent this from happening?!

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.

While Boruto and the others are forced to participate in Ouga’s experiments, Sarada and her team investigate Boruto’s disappearance and discover the existence of a suspicious individual.

Meanwhile, Boruto is shocked to discover the identity of someone who may be working for Ouga. Just then, a test subject is found dead—killed for reasons that have nothing to do with the experiment.

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.

With the disappearance of his Karma, Kawaki has lost his powers. He becomes worried that he won’t be able to protect Naruto or the village he cares for. Seeming to know what Kawaki is thinking, Amado verbally provokes him. Sumire becomes worried that Amado is planning something.

Meanwhile, Code teams up with Eida to get his revenge. Eida introduces him to another person who will be helping them.