With the Scylla cards copied from Tuckhorn and Tabak, four cardholders remain. Although the resolution on the video taken with Scofield's camera phone is too unclear to identify the remaining cardholders, the FBI agent Donald Self recognizes one of the cardholders as a colleague who works in the United States Treasury Department. An argument follows, over whether to track down T-Bag, who is somewhere in Los Angeles with Whistler's bird book that contains the plan to break into the Company headquarters. Scofield makes the decision to proceed on both fronts. He has Agent Self run high-resolution identity searches on the three unknown cardholders while attempting to copy the Treasury agent's card, and orders Sucre and Bellick to canvas LA for T-Bag.
Meanwhile, Sara Tancredi, upon discovering she has lost Bruce Bennett's credit card, realizes she is being followed by Wyatt, the Company's assassin. She makes a run for it and manages to elude the assassin.
Agent Self, by making up a story about Al-Qaeda using stolen bearer bonds manages to barge into the cardholder's office in the Treasury Department. Unfortunately, he discovers that the card itself is inside the holder's office wall safe, which blocks the device and prevents the card from being copied.
After losing Sara, Wyatt visits the imprisoned Gretchen Morgan, whom despite repeated torture and a starvation diet has managed to resist. Wyatt proceeds to slowly suffocate and nauseate Gretchen by putting a tape over her mouth and leaving a bucket of urine and body parts in the room. Later, Gretchen dislodges a nail from her chair, kills the guard by stabbing him in his temple, and escapes.
Mahone obtains a picture of Wyatt, who killed his son. He meets with his estranged wife, Pam, who is overcome with emotion. Mahone shows her pictures of possible Agents who match the description, and she immediately identifies Wyatt. She makes him promise to hunt down and kill their son's murderer, and gives him a gun.
Sucre and Bellick arrive at GATE, and ask for T-Bag who is masquerading there as Cole Pfeiffer, Whistler's fabricated persona. The receptionist, intending to blackmail T-Bag, lies to the duo. Scofield then calls them back to base in order to proceed with the card plan instead. T-Bag agrees to pay the receptionist three percent of his commissions.
Scofield has come up with a plan to break into one of the most protected buildings in the world and copy the card. The occupant of the room adjacent to the card holder's is led out of the building by Agent Self, who has arranged a lunch meeting. Sucre and Bellick, disguised as janitors, performs vacuum cleaning outside the room, effectively blocking entry and covering any noise from the room. Scofield and Lincoln break into the room via air vents and drill through the wall and the back of the safe in the next room. While drilling, Lincoln discovers Scofield's nosebleed and asks him how long it has been occurring. Scofield brushes it off and asks Lincoln not to tell Sara, though Lincoln says that since Sara is a doctor, she'd instantly find him out. The two successfully drill through the wall into the safe, when the "General" unexpectedly shows up. Paranoid after recent events, he demands to see the card, but Michael manages to copy and replace the card and gets the wall back up just before the safe is opened.
Mahone has managed to find the motel where Wyatt is staying. Wyatt, however, has already anticipated that his cover may have been blown by his failed attempt to recover Tancredi, and hires the hotel clerk to mislead any would-be followers and alert him immediately. The clerk, as per his orders, lies to Mahone and states that Wyatt has already checked out. When he calls Wyatt to tell him, however, Mahone suddenly appears behind him with a gun. Terrified, the clerk tells Wyatt that nobody has appeared. Mahone then takes Wyatt's number from the clerk.
The high-resolution identity scans have returned. Two of the three cardholders have been identified, along with their locations, but the third, the General himself, is a complete ghost — no records of his identity, past, or location exists in the database. Sara, however, recalls hearing Gretchen reporting to a 'General' when she was in Gretchen's captivity. Meanwhile, the General and Wyatt discuss what to do about the escaped Gretchen, when a Company agent alerts them that someone called Agent Self has performed an enhanced digital search on the General and attempted to identify him.