Boruto's classmate, Metal Lee, is very dilligent and is skilled at taijutsu. Unfortunately, he gets nervous easily and is unable to do his best when people are watching him. One day one of his classmates, Shikadai Nara, says something that enrages Metal, who attacks Shikadai the next day. Caught in the middle, Boruto notices that Metal's chakra is warped, just like Denki's.

The shadowy, warped chakra that only Boruto can see takes over more people, causing them to rampage. It only affected people within the Academy at first, but now it’s extending its reach into the village. Can it be stopped? And later, a Visual Jutsu places Boruto within a dream—and afterward, Boruto declares the dream has awakened his Byakugan, the Kekkei Genkai unique to his mother’s Hyuga Clan. Naruto does not believe him, so Boruto seeks advice from his grandfather, Hiashi Hyuga.

After Mitsuki reveals more information about the Ghost incidents, Boruto is determined to find and stop the culprit! Meanwhile, Seventh Hokage Naruto and his top advisors are shocked to learn who the perpetrator is from the results of Sai's investigation. Just then, Nue—an enormous otherworldly beast—appears! The imminent danger to the village forces the Sixth Hokage, Kakashi, out of retirement!

The Uzumaki household is thrown into chaos when Himawari, Boruto's younger sister, catches a cold. Naruto rarely comes home since he became Hokage, and Boruto's anger toward him grows especially because his sister is so sick.

Boruto and his classmates head to the Village Hidden in the Mist in the Land of Water for a field trip. Kagura Karatachi is chosen as the village guide. About the same age as Boruto, Kagura is already an accomplished shinobi and serves as an aide to the Mizukage, Chojuro. Once known as the Blood Mist Village, it's now more modern and bustling than anyone could have imagined. However, dissatisfaction exists among some Hidden Mist Shinobi.

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.

One rainy night, guided by Mikazuki the cat, Mitsuki rescues an injured man. Mysteriously, Mikazuki seems to take a liking to the man who says he’s come to visit his sister who works in the Leaf Village. Soon after, Team 7 is assigned to back up the Leaf Police Force on a security mission. Their client is a president of a company who is being targeted by a serial killer known as "The Rainy Day Killer.

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!

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.