25. Twelve Guardian Ninja
Naruto Shippuden Episodes 54 - 71
This is the first filler arc of Naruto Shippuden. It shows Naruto's training to get better at chakra control and his wind nature with Kakashi and Asuma.
This arc also features the filler character Sora. Sora is a monk from the Land of Fire who is the pseudo-jinchuriki of the Nine-Tailed Fox.
26. Akatsuki Suppression Mission
Naruto Shippuden Episodes 72 - 88
This story arc introduced the Akatsuki members Hidan and Kakazu. Hidan is both hated and loved for taking the life of Asuma Sarutobi.
Together with the first canon arc, this arc showed how much darker Naruto Shippuden was in comparison to the original series. It proved that people could die, and that truly no characters were safe.
27. Three-Tails' Appearance
Naruto Shippuden Episodes 89 - 112
This arc introduced another filler character who fans grew to love: Guren. This story arc showed the Hidden Leaf Village, the Akatsuki, and Team Guren's efforts to capture the Three-Tails.
This Tailed Beast used to reside within Yagura Karatachi, the Fourth Mizukage. He lost his life after the Beast was extracted from him.
28. Itachi Pursuit Mission
Naruto Shippuden Episodes 113 - 118
The Itachi Pursuit Mission Arc marks an important shift in the point of view Naruto Shippuden takes. The anime began to focus more on Sasuke around this part, as it showed both Sasuke and Naruto's attempts to find Itachi.
In this arc, Sasuke also formed the first iteration of Taka—a group composed of Suigetsu Hozuki, Jugo, and Karin Uzumaki.
29. Kakashi Gaiden
Naruto Shippuden Episodes 119 - 120
This two-episode story arc adapted the side story The Kakashi Side Story ~ A Boy's Life on the Battlefield ~. It explained Kakashi's backstory in-depth, how he dealt with being on Team Minato, his rivalry with Obito, and his past with his father, who took his own life due to guilt.
While this arc is largely a diversion from the main plot, it gives some excellent backstory about several characters.
30. Tale Of Jiraiya The Gallant
Naruto Shippuden Episodes 127 - 133
This story arc followed Jiraiya as he discovered that Pain was actually Nagato—his first and former pupil. It tracked his journey to stop Nagato from attacking the Hidden Leaf Village.
Jiraiya lost his life to Nagato and the six other Pains, but he still went out with a smile. The ending to this arc is one that fans couldn't help but cry about.
31. Fated Battle Between Brothers
Naruto Shippuden Episodes 134 - 143
After Jiraiya's death, the next story arc dealt with Sasuke finding Itachi first and battling him to fight death. Although the battle was wonderful, it is Itachi's characterization that most fans remember.
Itachi turned out not to be as big as a villain the story led others to believe. In truth, he was manipulated into destroying his village in a tragic turn of events.
32. Six-Tails Unleashed
Naruto Shippuden Episodes 144 - 151
The Six-Tails Unleashed Arc introduced another filler character named Utakata, who was also the jinchuriki of the Six-Tails. Utakata has a student named Hotaru, who he cares about dearly, although he doesn't express it as much as he should.
This arc features a ton of fun and unique techniques. It also takes a somewhat more tragic tone than other arcs in the series.
33. Pain's Assault
Naruto Shippuden Episodes 152 - 169 & 172 - 175
The Pain's Assault Arc featured the long-awaited battle between Naruto and Jiraiya's former student and killer, Pain—otherwise known as Nagato.
It also featured that Naruto is actually the son of the Fourth Hokage that he admired so much and the love memorable confession from Hinata.
34. Past Arc: The Locus Of Konoha
Naruto Shippuden Episodes 176 - 196
The Past Arc: The Locus of Konoha story arc is different from every other filler arc before it because it was shown from multiple perspectives. The arc is made up of multiple flashbacks, each one detailing a different event from Naruto history.
This arc shows the first time Iruka met Naruto, as well as the moment Kakashi was appointed the leader of Team 7. The flashbacks, which reach all the way back to before the Naruto Shippuden time-skip, help demonstrate how far Naruto has come since the beginning of the franchise.
35. Five Kage Summit
Naruto Shippuden Episodes 197 - 214
The Five Kage Summit arc focuses sees Naruto acting more hopeless than usual. He wishes to ask the Kage not to execute Sasuke for his crimes.
This arc also introduces the more serious version of Tobi. He was the Akatsuki member no one truly cared about until he showed he was dangerous after killing Konan at the end of the Pain Assault Arc.
36. Fourth Shinobi World War: Countdown
Naruto Shippuden Episodes 215 - 222
The Fourth Shinobi War: Countdown arc sees some of the most intense and heartwrenching episodes of Naruto Shippuden. After failing to sway Naruto with a lie, Sakura attempts to "kill" Sasuke with a poisoned kunai.
Following this, Naruto and Sasuke battle again. This also marks the beginning traces of the war and shows Sasuke's hellbent focus on getting revenge on the Hidden Leaf Village for causing Itachi to suffer.
37. Paradise Life On A Boat
Naruto Shippuden Episodes 223 - 242
The Paradise Life on a Boat Arc is perhaps the most disliked arc from the Naruto Shippuden franchise. It made its debut during the height of the Fourth Shinobi World War, but did little to advance that plot thread.
If this arc were placed anywhere else, fans would've probably liked it better. This story arc focuses on Naruto and the rest of the team as they search for the Land of Lighting atop a boat so they can keep him there during the war.
38. Fourth Shinobi World War: Confrontation
Naruto Shippuden Episodes 261 - 270, 272 - 289, 296 - 310, & 312 - 321
The Fourth Shinobi World War: Confrontation Arc was broken up by various fillers and intermissions in between. This part of the war introduces the reincarnated Hokage and other famous ninjas as they join the fray.
The Fourth Shinobi World War is made up of many battles spread across many episodes. It features a ton of great moments, as well as some unique and exciting techniques never before seen in the anime.
39. Power
Naruto Shippuden Episodes 290 - 295
The Powe Arc was a special case unlike any other in Naruto Shippuden. It was created to commemorate the broader Naruto series reaching 500 episodes.
The arc features Naruto and the rest of Team 7 investigating a mysterious incident. It takes place right in the midst of the Fourth Shinobi World War, and features some truly exciting action sequences.
40. Fourth Shinobi World War: Climax
Naruto Shippuden Episodes 322 - 348 & 362 - 375
The climax of the Fourth Shinobi World War featured all of the Kage fighting together to defeat Madara.
Reincarnation, Tailed Beasts, and a massive meteor all come together to make for a dramatic and fitting end to one of the biggest arcs in Naruto history.
41. Kakashi's Anbu Arc: The Shinobi That Lives In The Darkness
Naruto Shippuden Episodes 349 - 361
This story arc features Kakashi as the protagonist, as well as Itachi as a supporting character.
This story arc gives an in-depth look at his background in the Anbu and the backstories of Yamato. It even gives more insight into Itachi as a character.
42. Birth Of The Ten-Tails' Jinchuriki
Naruto Shippuden Episodes 378 - 388, 391 - 393, 414 - 421, & 424 - 431
The Birth of the Ten-Tails Arc was another stop-and-start with various fillers and intermission in between. This arc details Obito and Madara's transformation into the jinchuriki of the Ten-Tails.
Like the Fourth Shinobi World War Arc, the Birth Of The Ten Tails' Arc is an enormous epic that has long-lasting implications for the rest of the series.
43. Jiraiya Shinobi Handbook: The Tale Of Naruto The Hero
Naruto Shippuden Episodes 432 - 450
The Jiraiya Shinobi Handbook story arc is incredibly satisfying and sad at the same time. It features a story-within-a-story structure and focuses on a novel written by Jiraiya.
In this novel, things seem to go a lot better than they do in the real Naruto timeline. Everyone is friends, Tsunade's family isn't dead, and her fiance became the Hokage.
44. Kaguya Otsutsuki Strikes
Naruto Shippuden Episodes 451 - 455, 458 - 468, & 470 - 479
The Kaguya Otsutsuki Arc ran from episodes 451 to 479, with various fillers and intermissions in between, in the Naruto Shippuden anime. The first appearance of Kaguya shows the looming end to the war and the backstory of the character.
In this story arc, Kaguya's sons are also explained in detail and the parallels between them and Naruto and Sasuke are given a lot more screentime than ever before.
45. Itachi Shinden Book: Light And Darkness
Naruto Shippuden Episodes 452 - 458
The Itachi Shinden Book Arc serves as an intermission in between Kaguya's appearance. It focuses on Itachi's life before the Uchiha Clan Downfall, as well as his best friend, Shisui.
Aside from showing Itachi training from a young age, it also gives more insight into his thoughts and why he did everything the way he did.
46. Childhood
Naruto Shippuden Episodes 480 - 483
This story arc, like the Locus of Kohona arc, uses multiple perspectives to show similar events from different points of view. Each episode takes a pair of characters and shows events from their childhoods.
"Naruto and Hinata" shows the first time Naruto is ostracized from the village. "Sasuke and Sakura" show the two interacting before Itachi joins the Akatsuki. The other two episodes, "Gaara and Shikamaru" and "Jiraiya and Kakashi," give these characters even more background information as well.
47. Sasuke Shinden: Book Of Sunrise
Naruto Shippuden Episodes 484 - 488
The Sasuke Shinden: Book of Sunrise Arc adapts the light novel of the same name. The story contains a detailed reflection on Sasuke's motivations and conflicted inner nature.
After the Fourth Shinobi War, Sasuke becomes a wanderer and goes on various missions. The story arc focuses on Sasuke meeting a young girl named Chino, a kunoichi from the deceased Chinoike clan.
48. Shikamaru Hiden: A Cloud Drifting In Silent Darkness
Naruto Shippuden Episodes 489 - 493
The Shikamaru Hiden: A Cloud Drifting In Silent Darkness arc adapts another light novel, this time following Shikamaru's life after the Fourth Shinobi World War.
The arc focuses on Shikamaru's life two years after the Fourth Shinobi World War and takes place after Sasuke Shinden: Book Of Sunrise. It deals with Shikamaru taking time to reflect on his life and his ever-growing pile of responsibilities.
49. Konoha Hiden: The Perfect Day For A Wedding
Naruto Shippuden Episodes 494 - 500
Konoha Hiden: The Perfect Day For A Wedding ran from episodes 494 to 500—the final episode of the Naruto Shippuden anime. The Naruto series's final arc finishes with the Konaha 11 and the rest of the people important to Naruto and Hinata trying to figure out what they should get for their wedding.
This arc is a relaxing and comedic series of episodes that finishes with heartfelt conversations between the characters. It also shows the character growth and impacts Naruto had on everyone in his life
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