The story revolves mainly around Naruto Uzumaki`s and Sakura Haruno`s new adventures and their search for Sasuke Uchiha after he left Konoha-gakure (Leaf Village) to gain Orochimaru`s power. The plot also shows a more active Akatsuki in their quest for obtaining all the tailed beasts.

After his failed attempt to retrieve Sasuke, Naruto learns that circumstances have granted him slightly less than three years to prepare for a confrontation with Orochimaru, who has to wait that much time before he can transfer into Sasuke`s body. Naruto also must prepare for his eventual confrontation with Akatsuki, who are after the demon sealed within him. To prepare, Naruto leaves the village and undergoes intensive training under Jiraiya. At the same time, Sakura becomes Tsunade`s apprentice, and Sasuke trains under Orochimaru. Thus, all three members of the original Team 7 are now training under one of the Legendary Sannin.

01: Homecoming
02: Akatsuki, Action Begins

03: The Results of Training

04: Jinchuuriki of the Sand

05: As the Kazekage...!

06: Assignment Clear!
07: Sprinting Kankuro

08: Combat Mission, Kakashi's Group
09: Jinchuuriki Tears

10: Sealing Jutsu, Illusionary Nine Mystical Dragon Seal

11: Student of the Medical Ninja

12: The Retired Old Lady's Determination

13: The Destined Meeting

14: Naruto's Growth

15: The Hidden Orb's Name

16: Secret of the Jinchuuriki

17: Gaara Dies!

18: Breaking in! Button Hook Entry

19: Trap Operation! Team Gai's Enemy

20: Hiruko vs the Two Kunoichi

21: Sasori's True Face

22: Chiyo's Inner Hand
23: Father and Mother

24: The Third Kazekage

25: The Three Minutes Between Life and Death

26: 10 Puppets vs. 100 Puppets

27: The Dream That Couldn't Come True

28: The Revived Beasts

29: Kakashi's Enlightenment
30: Instant Esthetics

31: The Next Generation

32: Return of the Kazekage

33: The New Target

34: Formation! The New Team Kakashi

35: Unwanted Addition

36: A Fake Smile
37: Untitled

38: Simulation

39: The Bridge of Heaven and Earth

40: The Kyuubi Unleashed
41: Secret Mission

42:Orochimaru vs Jinchuuriki

43: Sakura's Tears

44:The Truth About the Fight

45: Consequences of Betrayal

46: Unfinished Page

47: Infiltration! The Venomous Snake's Nest

48: Bonds

49: Important Person

50: The Sketch Book Tells A Story

51: Reunion
52:Uchiha's Power

53: Title

54: Nightmare

55: Wind

56: Squirm

57: Deprived of Eternal Sleep
58: Loneliness

Shippuuden 59: New Enemy

Shippuuden 60: Wheel of Fortune

Shippuuden 61: Contact

Shippuuden 62: Teammate