While the group attempts to understand why they were kidnapped, Moira painfully removes the implant device that has been embedded in each person's thigh. Elsewhere, trying to escape back to their normal lives, Joe and McNair carefully test the limits of the invisible fence. Meanwhile, back in San Francisco, curious reporter Renbe's search for information on missing mom Janet hits a dead end.

After a week of escape attempts end in failure, tension begins to grow within the group. When a helicopter appears above the hostages, they are hopeful that help has arrived, but the craft only hovers long enough to drop a mysterious box. Meanwhile, San Francisco reporter Renbe puts himself back on the case of Janet's disappearance, despite warnings to stop his investigation.

When Joe wakes up strapped to a table, he is told he must be "reeducated" in order to return to the program, or he will die. He then endures a dizzying array of dreams, hallucinations and flashbacks designed to steer him back to the program and away from Janet. Back in town, both Blackham and McNair are forced to come to terms with their troubled pasts. Elsewhere, continuing their journey in South America, Kat and Renbe try to track down the only person who has ever escaped "the program."