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The following characters can be unlocked by performing the actions below. After unlocking, they must be purchased in the shop.
| 4th Hokage | Get Hokage rank on ALL 400 missions |
| ANBU Kakashi | Beat 40% Missions including the S-Rank for Kakashi, and 20% Missions for all other characters, then redo Kakashi's S-Rank mission, win, and Purchase |
| Anko | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Asuma | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Baki | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Bando | Earn at least 70,000 ryo altogether |
| Chiyo | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Choji | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Deidara | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Hidan | Beat 30% Missions of Deidara, Sasori, Hiruko, Itachi and Kisame, then Purchase from the Shop |
| Hinata | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Hiruko | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Itachi | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Jawona | Beat Story Mode on Level 3 |
| Kabuto | Purchase the first set of characters, then go to shop |
| Kagura | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Kakuzu | Beat 30% Missions of Deidara, Sasori, Hiruko, Itachi and Kisame, then Purchase from the Shop |
| Kankuro | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Kiba | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Kisame | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Komachi | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Kurenai | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Orochimaru | Purchase the first set of characters, then go to shop |
| Sai | Purchase the first set of characters, then go to shop |
| Sasori | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Sasuke | Purchase the first set of characters, then go to shop |
| Shikamaru | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Shino | Beat Story Mode on Difficulty 2 and Attack Power 2 then Purchase from the Shop |
| Temari | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Towa | Purchase from Shop or Finish Story Mode then, Purchase other characters |
| Yamato | Purchase the first set of characters, then go to shop |
: Use the following characters for Squad Specials.
: If you have a Naruto Shippuden: Clash of Ninja Revolution 2 data on your Wii you will receive a 50,000 ryo bonus when beginning Revolution 3.