During battle, different body parts can be targeted to disable the enemy. For instance, attacks to the legs will slow them down, while blows to the arms will weaken their attacks. By strategically striking key areas of the body, players can strip the enemy of their ability to fight.

There are 2 main characters in Last Rebellion, Nine (male) and Aisha (female). Nine is a Blade, whose specialty is physical attacks, and Aisha is a Sealer, who uses magic spells to attack & seal enemies. The player can switch back and forth between the two during the battle. Since Nine and Aisha share a single, the player must strategically choose which character to execute their attacks first. Because of this, Last Rebellion is no ordinary RPG with another mindless battle system. The player must be aware of which enemies they are fighting against, and use their experience and strategy throughout the game.