Gabriel and Riley must prove Gabriel's innocence after he sees himself at the scene of a murder in a cyber-render. DCI Tetazoo takes over CyberCom and relieves Lillian of her duties as he orders a manhunt for Gabriel and Riley.
When an advanced cyber-worm infiltrates the power grid Lillian sends Gabriel and Riley to Los Angeles to locate the hacker responsible.
After a cyber attack to the FBI's Witness Protection database, CyberCom is asked to investigate. The case takes a personal turn for Lillian when it is revealed that the hacker plans a terrorist attack in San Francisce whose daughter lives in the city.
After CyberCom is attacked by an aggressive computer virus, Gabriel's chip malfunctions, causing him to lose his memory. Jin Cong re-programs it to make him think that he (Jin Cong) is the good guy and that CyberCom is the enemy. Gabriel then helps him locate a secret document - a list of children with the same mutation that he has.moreless
Gabriel, Riley and Jameson are sent to Bolivia to protect the preferred U.S. presidential candidate. The mission becomes personel for Gabriel when it is revealed that his former Delta Force buddy is responsible for all of the political assassinations.
Nanites, which are generations ahead of current public and/or government technology, are killing the world leading scientists in artificial intelligence. Gabriel and U.S. Cybercom have their plate full, as they must find out who is on the hit list and protect them (including both Father and Son Cassidy). They need to find the person behind it, discover a way to locate the killing machines already on their way, and how to stop (deactivate or destroy) released nanites before they complete their sole killing purpose.
Along the way, they also have to protect Clockwork from discovery by those remaining scientists who come in touch with Gabriel and can see him for who he is, "the future."moreless
Gabriel and Riley are sent to find a "patient zero" who has been spreading around a deadly disease. They must work quickly without contracting the virus themselves.
When the daughter of a Senator is kidnapped, Gabriel and Riley are sent to rescue the daughter and her friend. Meanwhile, Lillian deals with her father who shows up with an interest to the case.
Gabriel and Riley go on a covert mission posing as additional security for a diplomatic convoy in order to extract two American journalists in Syria. During the mission, Gabriel makes some choices that will affect Clockwork's future.
Gabriel discovers that Mei Chen is still alive and that she can also hack his chip.
CyberCom investigates a terrorist suicide bomb that went off at a U.S. Marine base. Meanwhile, Riley has to make a fast decision when Gabriel is unable to complete a task.
Before the top-secret technology falls into the wrong hands Gabriel and his handler must go to any lengths to rescue the kidnapped inventer the chip implanted in Gabriel's brain. Meanwhile, Gabriel takes advantage of his chip to find out what happened to his wife.