As the game adapts up to the manga chapter 636, many of the Straw Hats' attacks are filler ones that have not appeared in the series at all. Moves like Luffy's "Gomu Gomu no Redhawk", Zoro's "Rengoku Oni Giri", Usopp's "Midori Boshi: Impact Wolf", and Brook's "Kasuriuta: Fubuki Giri" do not appear in this game. In addition, Chopper cannot transform into his new Heavy Point and Monster Point, Franky cannot use Franky Shogun (as well as Franky Cannon and Franky Fireball, though strangely he can utilize a laser beam in one of his combos) and Brook cannot use the freezing abilities of Soul Solid. This applies for Jinbei too, as he cannot use moves like "Uchimizu" or "Nanasenmaigawara Mawashigeri" as he does not have a post timeskip version.

Although the sprites of Hatchan and Keimi are not altered according to the timeskip, they appear with their timeskip's design in the opening intro.

Since this game was released before they appeared in the anime, this game marks the debut of Hody Jones, Hyouzou and Vander Decken IX's voice actors.

At the time of release, Donquixote Doflamingo's powers had remained unknown in the One Piece series. However, in-game Doflamingo is considered a Paramecia type Devil Fruit user.