After being suspended for the uproar he caused at the entrance ceremony, Boruto makes his way to the academy for the first time. His classmates ostracize him for being the son of the Seventh Hokage and for being suspended. Iwabe Yuino, one of Boruto's classmates, picks a fight with him. Iwabe is an older student who has a keen sense for battle, but was held back a year for his bad behavior. At first, Boruto ignores him no matter what he says. But when he sees Iwabe punch Denki for telling him to stop, Boruto can't ignore him any longer.

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.

Tsurushi Hachiya, Kagura's former classmate at the Academy, finds Boruto and his friends from the Leaf irritating, so he kidnaps Denki. Kagura and Boruto set out to rescue him, and they find themselves in a battle against Hachiya and his crew. During the fight, the truth that Kagura has been hiding is revealed!

Prior to the graduation exams, it's decided that the students will take part in a three-person interview to discuss their future plans. Boruto, who has passed his ninjutsu courses with flying colors, realizes his path toward becoming a "ninja" has been trouble-free and easy. As the students prepare for their finals, Boruto meets a journalist named Sukea who is doing a story on them. Something about Boruto's indifferent attitude about his future as a ninja raises a red flag in Sukea, and he gives Boruto a warning.

The Byakuya Gang's activities become more brazen in the Hidden Leaf. While some people view them as heroic, noble thieves, Boruto can't get himself to approve of their actions. The genin are told to work together to capture the gang, and security in the village is increased. During this time, Shikadai meets a youth named Ryugi. Despite their age difference, a bond grows between them.