The Allied Shinobi Forces begin to lose ground on the battlefield when Madara of the Akatsuki adds his powerful attacks to the fight, so Naruto and Bee rush to their aid, but the leader of the Cloud Village will go to any lengths to stop Naruto from risking his life.
As Naruto and the Allied Shinobi Forces battle Kabuto's zombie ninjas, they find themselves fighting against former friends and enemies as well as some fearsome weapons.
Naruto is forced to face his inner demons at the Waterfall of Truth, which threatens to destroy his biju's power. During this struggle, an important person from his past arrives in the village, bringing new information about Naruto and Nine-Tails.
Naruto has a reunion with his former classmates Sasuke and Sakura, knowing that he must one day battle Sasuke to the death, if Sasuke's dark allies, the powerful Allied Shinobi Forces, will allow the confrontation.
Sasuke takes on Danzo, the leader of the Konoha, determined to find out about the Uchiha clan and the truth about what happened between the political factions of Konoha and Itachi.
Naruto is affected deeply by the five leaders' plan to deal with the rogue organization the Akatsuki, and the new Hokage of Naruto's village prepares to make a final move against Sasuke.