This part 2 of a two part story. Part 1 is called White Knight Chronicles
The games begins with a prologue in Faria, where the Farian general Scardigne is trying to get the Farian Princess Miu out of the city safely due to a civil war led by Ban Nanazel. They manage to escape the city but are pursued. The game then cuts to where Princess Cisna has summoned Leonard, Eldore and Yulie, she tells them that they need to go to Faria and speak with a mystic known as Father Yggdra. The group goes to Faria where they encounter Scardigne and Miu and save them from Ban Nanazel's forces. The group then learns that the now reborn Yshrenian Empire (formerly the Magi), headed by Grazel and High Priest Ledom (formerly Sarvain, the regent of Balandor following Cisna's kidnapping in the first game) from the previous game, supported Ban Nanazel.
The player can freely choose which character to control. The characters gain experience points and level up, becoming stronger over the course of the game. The player can select locations on a world map that the player has already visited to go to instantly, along with a preview of that area including a list of quests the player has yet to complete. The player can choose a quest to embark upon before going to the desired area. The battle system used in White Knight Chronicles is a real-time system where the battle mode can be initiated when enemies are present. Before a battle the player optionally goes into the "Battle Preparation" menu (accessible at any time) and chooses up to three sets of seven commands for each character in the party. This set of twenty one commands is called a "Command Setup" and several of these setups can be saved for switching between classes. Commands can also be linked in order to create combos to use in battle. The player controls one of the characters while the others are controlled by the AI. Players can freely change the character they are controlling. The main character can transform into the White Knight using action chips which are acquired by defeating enemies. Boss battles also take place in a similar fashion except that they may include cutscenes for in-battle events.