The spirited Boruto Uzumaki, son of Seventh Hokage Naruto, is a skilled ninja who possesses the same brashness and passion his father once had. However, the constant absence of his father, who is busy with his Hokage duties, puts a damper on Boruto's fire. He ends up meeting his father's friend Sasuke, and requests to become... his apprentice!? The curtain on the story of the new generation rises!

Deep within the Hidden Leaf Village, young ninja Naruto Uzumaki carries sealed inside him the Nine-Tailed Fox Spirit, which once almost destroyed the village. Always an outcast because of his secret, now Naruto battles alongside his teammates Sasuke and Sakura to prove to himself and everyone else that he's the greatest ninja ever. But he's got a long list of challenges to face before he gets there!

Sixteen years ago, a mysterious masked ninja unleashes a powerful creature known as the Nine-Tailed Demon Fox on the Hidden Leaf Village Konoha, killing many people. In response, the Fourth Hokage Minato Namikaze and his wife Kushina Uzumaki, the Demon Fox's living prison or Jinchūriki, manage to seal the creature inside their newborn son Naruto Uzumaki. With the Tailed Beast sealed, things continued as normal. However, in the present day, peace ended when a group of ninja called the Akatsuki attack Konoha under the guidance of Tobi, the mysterious masked man behind Fox's rampage years ago who intends on executing his plan to rule the world by shrouding it in illusions.

Assigned on a mission to capture Mukade, a missing-nin, Naruto Uzumaki sets out for the once glorious historic ruins of "Ouran", where he pursues and corners the rouge ninja. Mukade's goal is revealed to be a dormant leyline within the ruins; he unleashes the power of the leyline, causing a light to envelop Naruto, sending him into the past, 20 years before the series began. When Naruto awakens, he comes into contact with the Fourth Hokage, Minato Namikaze.

After his capture for attempted assassination of the Raikage, leader of Kumogakure, as well as killing Jōnin from Kirigakure and Iwagakure, Naruto is imprisoned in Hōzukijou: A criminal containment facility known as the Blood Prison. Mui, the castle master, uses the ultimate imprisonment technique to steal power from the prisoners, which is when Naruto notices his life has been targeted. Thus begins the battle to uncover the truth behind the mysterious murders and prove Naruto's innocence.