When a modification for Ben's Omnitrix goes haywire, his partner, Rook, gets sent back in time, meeting Ben from when he was 11 years old. Rook and Young Ben get into a scuffle with the villain Malware who absorbs Rook's Proto-Tool for new powers, leading to a terrifying alternate future. Play as both Teen Ben and Young Ben and work with your partner Rook to solve crime, fix both the past and present, and defeat the evil plans of Malware, intent on destroying the world.