Izumi (Kento Hayashi) was abandoned by his parents. He now commits burglary, targeting women and the elderly. He is chased by the cops. While on the run, in the mountains of Miyazaki Prefecture, he helps an injured elderly woman, Suma (Etsuko Ichihara). Izumi then stays at Suma’s home. At first, Izumi keeps an eye for money that he can steal. The people though in the village think Izumi is Suma’s grandson and take care of him. A change takes place in Izumi.

Set in the year 2000 (between the events of Patlabor and Patlabor 2), when the level of Labor accidents begin to escalate around Tokyo Bay, police detectives Kusumi and Hata are assigned to investigate. What they discover leads to a series of government cover-ups, conspiracy concerning a new biological weapon entitled WXIII-Wasted Thirteen and a tragic, personal connection to Hata. The only hope to stop this threat is to cooperate with the military and lead WXIII into a showdown with the Labors of Special Vehicle Division 2.