After graduating from the Academy and becoming a Genin, Mitsuki is assigned to Team Konohamaru with Boruto and Sarada. He enters in the Chūnin Exams with his team-mates, although it takes some scolding from Sarada and meeting Sasuke to get Boruto to agree to enter with him and Sarada. In the exam, they excel with their abilities. During the final round, Mitsuki watched on with Sarada as Boruto fought against Shikadai Nara and was disappointed when Boruto was disqualified for cheating. Soon afterwards, Momoshiki and Kinshiki Ōtsutsuki attack. Mitsuki and Sarada help evacuate children from the area. He became concerned for Sarada when it appeared that she had been crushed by falling debris, but was then shown to be relieved when he saw that she had been saved by her father. At the end, Boruto finally asks Mitsuki about his parentage, to which the latter says he is the son of Orochimaru. This shocks Sarada and she asks if Orochimaru is his mother or father while Boruto asks who Orochimaru is, and Mitsuki replies it doesn't matter, much to Boruto and Sarada's confusion.