A young program called Beck, upon realizing that the leadership of the one called Clu, may not be the best for programs, decides to fight back, but the program he meets in doing so will change his life forever.
Beck must destroy an energy drill before its destructive power destabilizes the Grid and threatens Argon City, a feat made more difficult as a light cycle race cuts through the danger zone. While warning the racers of the bomb he intends to plant on the drill, Beck is overheard by Paige, who plans to stop him.
Beck infiltrates Tesler's base to steal a data cube. While trying to escape with the data cube, Beck gets stranded on an island with Paige. Both have to call a truce in order to devise a way off the island.
Beck intercepts Tessler's new prototype weapon that augments a program's agility and strength. Beck tries to destroy this new weapon but is forced to use it and becomes tainted by the power and is unaware of its negative side effects.
Mara is under pressure when left in charge of Beck, Zed and the other mechanics at the garage. Meanwhile Able disappears on a trip on his own which might reveal that he knows more about the Uprising than previously suspected.