The story begins with Anakin Skywalker and R2-D2 on a Separatist cruiser where they have completed an important mission and attempt to escape in Anakin's Jedi starfighter. But they are attacked by Hyena droid bombers and R2-D2 is blasted out into space. When he returns to the Jedi Temple, the Jedi masters tell him to find the droid and his special blueprints. Meanwhile, the Separatist leaders are desperate to recover the droid, and Chancellor Palpatine has dispatched a special squad of clones to do the same.