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.

Motoi confesses to Naruto and Yamato that he attempted to kill Bee during their childhood because of his father's death due to the sealing of the Eight Tails 30 years ago.

With Killer Bee as his new master, Naruto begins his training to control the power of a Tailed Beast. In order to do so, one must fight the Tailed Beast head on and absorb its chakra, converting it into one’s own power.

Inside his mind, Naruto continues his battle against Nine Tails to take control of its immense power.

Sixteen years ago, Fourth Hokage Minato Namikaze and his wife Kushina are expecting their first child, much to the delight of the young couple.

Minato is forced to use his Flying Raijin jutsu and leave his wife Kushina behind to save their newborn son, Naruto, from a masked assailant.

The Nine Tails, having been released from Madara's control, continues to wreck havoc in the city. The Third Hokage summons the Monkey King Enma and drives the Nine Tails away from the city. Minato then returns to the city and with the help of the toad Gamabunta is able to restrain the Nine Tails long enough for him to teleport it along with his family to the outskirts of the village. Kushina binds the Nine Tails and as Minato prepares to do the Reaper Death Seal to seal away half of the Nine Tails Chakra and seal the rest inside Naruto using the Eight Trigrams Seal. He also seals a bit of Kushina's chakra to help Naruto tame the Nine Tails. All of this is witnessed by the Third Hokage and a few other ninja.

Guy arrives at the Waterfall of Truth to help Naruto with his training. Instead he encounters Kisame, who has infiltrated the island to locate Naruto and Killer Bee.

The after-effects of Guy's Daytime Tiger are felt throughout the island. Kisame is defeated, and Guy explains his technique. Yamato restrains him so Aoba can gather intel. When he's about to learn Tobi's identity, Kisame forces himself awake by biting off his own tongue. Kisame breaks free of his restraints and creates a water dome around himself. He recalls Itachi's words about learning what kind of person one is when they die. Knowing he's too weak to resist, and to prevent his enemies from gathering intel, Kisame summons sharks and allows himself to be eaten. The others are impressed by Kisame's resolution. When they open the scroll Kisame intended to deliver, it turns out to be a trap, leaving them stuck inside water prisons, while a summoned shark takes the scroll with the intel away.

Tobi heads to Hidden Rain Village to retrieve Nagato's Rinnegan. Konan, now a former member of Akatsuki, recollects her past until Tobi arrives. Tobi asks Konan where is Nagato's Rinnegan and Konan replies that it is not located in the village. Their battle started and Tobi tells Konan that he encouraged Yahiko to form Akatsuki and he gave the Rinnegan to Nagato. Konan transforms into thousands of pieces of paper to self-destruct against Tobi, yet it fails and both survives. Konan unleashes a powerful paper technique that looks like a sea of paper beneath their feet.

Konan encloses Tobi in an chasm with a large amount of explosive tags that detonates in a wide area. Tobi manages to survive with his Izanagi techique, sacrificing one eye, and pierces Konan behind. Tobi explains his technique to Konan. Konan refuses to give up and continues to fight Tobi. Tobi manages to subdue her and places Konan inside a genjutsu to force her to reveal the location of the Rinnegan. Tobi travels to the location and retrieves Nagato's corpse and then takes his leave. A bloodied piece of paper is blown of Konan's body by the wind and travels to her childhood hideout. As it travels, more of the Ame Orphans past with Jiraiya is revealed, as well as some of their time as the original Akatsuki. Meanwhile, Tobi, with a new outfit, is told by Zetsu that they have received intel on the Nine-Tails wherabouts from Kisame. He declares that it's time to capture the Nine-Tails.

Zetsu reports on new intel from Kisame and Madara learns about Naruto hideout. Tsunade, Gaara, Lord Raikage, and others must figure out how to get Naruto out of the secret island of Land of Lighting and all without telling him about the war. New mission is introduced.

Kabuto and a reanimated Deidara attempt to grab hold of the jinchuriki, but are stopped by the Tsuchikage, who has come to protect Naruto.

Fourth Great Ninja War is about to begin, ninjas are going through their formations, medical supplies are being checked and restocked. The title of this Naruto Episode is "Assemble Allied Shinobi Forces". The headbands are done. Let's go! Tsuchinage saves Nine Tails and Eight Tails, but Yamato gets captured.

Part One of the Four Week Long Special Project for the Broadcast's Tenth Anniversary - A look back into the early years when Naruto and Sasuke first met.

Part Two of the Four Week Long Special Project for the Broadcast's Tenth Anniversary - During the Chunin Exam, Sasuke witnesses Naruto’s growth as a shinobi.

Part Three of the Four Week Long Special Project for the Broadcast's Tenth Anniversary - Sasuke’s defeat to Gaara, and later Itachi, forces him to realize that he is not strong enough to get revenge against his older brother.

Part Four of the Four Week Long Special Project for the Broadcast's Tenth Anniversary - Naruto is determined to save Sasuke, who has deserted the Hidden Leaf.