Chuck has to return to Stanford University, the institute that expelled him, on homecoming weekend to help a former professor. Chuck finds out that his former professor is also a government operative who is being hunted out for a sensitive top-secret file. Chuck must use his past experiences to find his Professor's hidden secret, while at the same time discovering shocking secrets about his own life. More importantly, Chuck discovers the truth about his former friend, Bryce Larkin, the one who got him kicked out of Stanford. Meanwhile, Morgan has problems with the new assistant manager at Buy More.

Chuck starts dating Lou, a sandwich maker, and things seem to be going really well. This incites some jealousy on the behalf of Chuck's ex-girlfriend, Sarah, as she may be discovering that her feelings were not all just a cover. However, things seem to get complicated when Lou is discovered to be a part of a smuggling group. Is the relationship with Chuck another phony or is this relationship for real? Meanwhile, Morgan starts developing a new relationship with an unlikely girl.