This is the first animated TV series of the popular manga Black Jack. Basically, it is a faithful production of the original but some adjustments were made in the plots and depiction of surgical scenes to make them acceptable to a wider audience. Moreover, Largo, the family dog, and Sharaku and Wato Chiyoko from The Three-Eyed One join the series as regular characters.

Black Jack attempts to find out the conspiracy, of why he was involved in the bombfield accident that killed his mother. Together with Pinoko, they circles the globe in search of clues. Along the way, he discovers the deep and dark secrets of the Organization and Project "Noir".