To keep it simple,

Red John = Brett Partridge (Death was glossed over too easily, always has been RJ in my mind. The Voice)

Red John Co-conspirator = Bob Kirklands Twin 'brother' Michael (they killed Bob so we are not confused as an audience when Michael shows up/ He helped Partridge fake his own death at the house/ killed the PI and made it look like it was Tyger Tyger)

Red John Father = Bret Stiles (Instilled some weird values and rituals into his 'son', including the blood smearing MO) 

Really long shot = Van Pelt is on Team 'RJ'. Her back story is too vague. She set up the tracking on the RJ suspects and helped get Lisbon to be the one who showed up at the house.


Happy theorizing guys!