A woman, Paulette, picks up a locked case and has it stolen, then comes to John for help. Moretti, a dead scientist, developed chips to augment the human brain and left them to her. John accepts, believing chip-augmented brain processes may be connected to him. The trail leads to Moretti's house and a dead man andmdash; the thief, then to a on-line escort service where it turns out Paulette works. John figures out Paulette has the key on her charm bracelet and opens the case andmdash; it has a motherboard set up like a map of the city, and John and Paulette track the location to an abandoned basement being used as a lab with comatose accident victims being used as subjects in the chip experiments. Then they figure out the case contents have bar codes but when John scans them for info a hacker starts blowing up city sites through the electrical and water system and demands the case be given to him. John takes the case and tracks the hacker back to a nearby mall andmdash; it's Moretti's assistant Johansen...
The series is about the life of John Doe, a mysterious man who rises from the primordial waters of an isolated island, possessing knowledge of literally everything in the world, yet having no memory of who andmdash; or even what andmdash; he is. Doe quickly finds his way to Seattle, where he befriends the police and uses his special gift to help them solve 'impossible' crimes each week, while continuing his unending quest to uncover who he is and where he came from. Despite his considerable charm, Doe is an emotional island unto himself. Want to know the population of Peru in 1853? How many blue cars there are in the state of Washington? Or better yet, predict which horse will win every race at the track based on knowing all the variables? Doe has all the answers. But what is he like? Family man or loner? Hero or villain? What is truly in his soul? Doe doesn't have a clue. In his search to unlock the key to his past, He may be a government agent, an extra-terrestrial or perhaps just a regular guy.