Jake 2.0 surrounds NSA computer technician Jake Foley who is transformed into a secret agent after he is accidentally infected with nanobots, based on nanotechnology that reduce the size of a computer to the molecular level, which give him superhuman powers. With his new abilities, he can hack into anything electronic and control it. His medical and emotional state is carefully watched over by Dr. Diane Hughes, who is far too human for her job with the NSA. Struggling in his early tasks with the NSA, Jake must prove himself and yield results or be locked up for "research."