The Republic forces on Rhen Var had to be evacutated after a separatist attack. After taking out the escaping separatist ships, Mace Windu encounters three Dark Acolytes and managed to destroy them. After the arena battle, Mace Windu has to lead a group of elite clone troopers to take out the Separatist ships, including some Techno union and Trade Federation core ships. Their next objective was to eliminate the enemy forces at a nearby landing zone so the transports that the Jedi were using could land. Just before the Battle of Geonosis, Mace Windu and Luminara Unduli were sent to eliminate the Geonosian and separatist defense forces on Geonosis. Various cheat codes can offer in-game bonuses such as unlimited ammo or invincibility and can also unlock various extras. The bonuses are used to unlock extras in the option menu such as a gallery of vehicles, concept art of the levels and vehicles, and various production videos. Each mission consists of several objectives, such as destroying a target or protecting a transport, along with two to three bonus objectives, such as protecting all of the transports so none are destroyed.

There are 16 total missions and six planets to choose from and unlock mostly in order. In the single player mode, most planets in the game have two or three missions, however some only have one mission. The screen will show a galaxy map with the planets of the game on, from there the player can select which level to play. The last option the player can choose is the single player, campaign mode. If the player clicks on multiplayer the screen will show the hanger whilst the player selects the multiplayer game options. By clicking on options and extras the player will go to one of the crew's screens where the extras can be viewed.

The main screen is the bridge of a Acclamator I-class assault ship. The target reticule has enemy health information in it, and there is a radar on the right of the players screen, showing all nearby enemies.

When the mini-icon has lost all color the player's vehicle has been destroyed. After the shields have been depleted the vehicle's mini icon, which represents the hull strength, looses its color. The damage indicator has a blue glow around it and as the vehicle's health is depleted the glow is reduced until the shields have been fully depleted. The player's HUD has a special ability meter on the left, with a damage indicator next to it. The gameplay is mostly vehicular and primarily is based on the ground, however various missions involve the use of Republic Gunships to transport troops and complete objectives.

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