While talking with his students, Shino talks about how he and his team got together and became more close as friends and teammates. The story switches to Shino's flashback during the first part of Naruto. They are on a mission assigned by Kurenai in which a Jonin assassin from a neighboring village. Shino gets defeated because of weak taijutsu and descends into depression. He even reveals he was going to abandon the team that helped him because he didn't think he was useful to them. But after his friends get in trouble with the rouge Shino comes back and defeats the rouge.

After a long voyage at sea, Naruto’s ship finally arrives at the island of its destination. Before everyone can rejoice, a giant squid attacks the ship. Fortunately, the crew is saved by Killer Bee, the Eight Tails’ jinchuriki host.

Hagoromo's two sons, Ashura and Indra, share a happy childhood, training and playing together. Indra is naturally gifted with great talent, and at a tender age is nicknamed the “genius of Ninshu.” On the other hand, Ashura has no aptitude for Ninshu. Still, the two boys are very close. But Hagoromo is unaware of the malevolent power stirring in the shadows…

Before Naruto and Sasuke can attempt to seal Kaguya away, she transports Sasuke into a different Time-Space. Obito realizes that Kaguya’s ability to travel through Time-Space is similar to Kakashi’s and his own Visual Prowess. Obito and Sakura team up and begin the search for Sasuke.

Naruto and Sasuke have both become such high-level shinobi that each knows exactly what the other is thinking just by exchanging attacks. Despite knowing how Naruto feels, Sasuke is determined to cut him down.