Lorelei read a list to Lisbon.
Lisbon freaked out and jane acted like he hardly cared.
Jane when asked what to do , said he was "thinking about trains " and "pecan pie" on another occasion.
Jane never tells Lisbon dangerous info.

Lisbon tells van pelt.
Van pelt answers the phone "hey boss" then acts weird so Rigsby thinks she is having an affair . Jealous much?
Van pelt tells Rigsby then Rigsby tells cho.
The gps trackers are secretly put on each suspect without their knowledge.
Lisbon gets a call.
Lisbon is taken and "marked"

***How is Red John find out ?
The answer can be 2 things:
1. Red john is magic and psychic.
2. SOMEONE ON THE TEAM IS RED JOHN OR A MOLE.

It is pretty simple really .
If you re-watch "the desert rose" you will notice how little patrick jane cares that red john guesses the list.
The same apathy can be found when the fbi shuts down cbi. Jane hardly cares at all.

Do you see the con?
Fast forward to now . Jane is in the fbi with lisbon and cho.

Do you see the con?
This is Jane 101.