Plot hole: The CIA is desperately trying to find Pope's contact, to the point of doing the crazy experimental brain surgery shipping over the ocean the one scientist that may perform it, and an inmate. But they don't have Pope's house under surveillance or his phone tapped, so they have no idea Strook called him. The fact that Strook not hearing back from Pope would try to contact him was quite literally the most obvious possible event. (00:31:00)
Plot hole: Jerico locates the doctor using the "phone tracking software by the CIA" from a public library computer. There's enough of Pope's proficiency with computers in him to block from remote any attempt from the CIA headquarters to look into what he's doing precisely (does not sound like it's a standard function to have, obscure agent activity from their own HQ!), but not enough to delete the history from the computer when he's done. Not just that, but through that search done at the library presumably several minutes earlier (the CIA agents have to physically go to the public library and search the computer terminal) he is able to locate the doctor, who is walking down a street. Finally; why would the doctor they flew in overnight from the US have a UK mobile number as shown on screen?
Plot hole: Jerico leaves Jill's house to go to the university, driving her car. While he's away, Elsa pays her a visit and extorts the location. When we see Jerico at the university, he enters the book cellar, finds the famous duffel bag almost immediately, and as he exits, outside there's Heimdahl sitting there, having set him a trap. That would already been hard to swallow, but we could assume his location was significantly closer than Jerico's to the university library and Elsa phoned him. But becomes downright impossible when we see that to pull the lever of the Home Alone-ish trap there's none other than Elsa, miraculously arrived at his destination despite him having a huge headstart.
