Eon returns and switches Ben's mind with his younger self as part of a plot to take over the timelines. It's up to Paradox, and the two Gwens from the past and present, to help the Bens' regain their rightful minds and help to defeat Eon.

After Ben accidentally destroyed Mr. Baumann's car during his fight with Psyphon's minion, Thunderpig, Mr. Baumann orders Ben to make deliveries for him without using the Omnitrix. When Ben unknowingly gets the Dwarf Star (a massive power source that was going to be sold at Psyphon's auction) in his possession, Ben must fight off Pysphon, Fistina, Zombozo, Trumbipular, the Vreedle Brothers, Fistrick, Vulkanus, Sunder, and Seebik to keep them from getting absolute power.