1 ) B Heller before the issuance of Season 6 said that RJ is definitely someone from the list , and we find out who it is , but did not say in which episode.
2 ) Thomas MacAllister can be a pawn , just like a Timothy Carter .
3 ) I found information on the internet last episode of Season 6 has worn the title " RED JOHN ` S FOOTSTEPS " . I personally interpret it in such a way that the RJ again will mark its presence .
4) Heller said in one of the interviews, Patrick will face a difficult choice . So far, nothing happend like that. 
5) Still a lot of open and unexplained threading , such as how RJ knew a list of seven suspects, the encoded file on a USB Bertram's stick , or the mysterious woman in the chapel in episode 6x08 , which to me clearly had to kill Patrick , or MacAllister and make it look like they killed one another .
6 ) The Mentalist had so far great twists and I doubt that producers , writers , etc made ​​suicide , killing the main thread of the series in such a bad way.


In my opinion, MacAllister was a pawn, and the real RJ is Haffner. He belongs to a Visualize, so he could be on the farm. His mentor is Stiles and thats why Stiles know about the activities of RJ, such as Kiddnaping Kristina Frey. Lorelai said Patrick, RJ offer him a new life, money etc in exchange for his friendship. Bret Stiles has money, he could use them to Haffner has recruited Patrick. Probably that is the source Haffners he used to open bussiness. 

Fuck me! Well Red John is back - at least in Sherlock anyway!

The Golden Hammer here-------> http://gamovideo.com/fe5cthixbj8y

Red John is a popular serial killer who is suppose to have a huge ego and much fame with his followers .
Weird thing to me is that Jane did not create or start Red John to be a killer.

But it seems that Red John only makes a move as it pertains to Jane.
Like he only cares about killing and being Red John ONLY if Jame or somethting involving Jane is a factor.

**Red John after Jane started at CBI killed :
~Jared Wrenfrow -janes witness
~Red john copycats- to save janes life
~Bosco and his team- for jane to get his case back
~Madeline Hightower(failed attempt)- framed for killing janes suspect.
~Wayneright- Fired Jane and stopped Jane from doing his job.
~Panzer- Jane wanted Ref John to kill him
~Lorelie Martins(maybe dead)- Janes biggest witness.
~Sophie Miller - Janes psychiatrist
~Janes happy memory- Nuff said
~Kira Tinsley- Dated Cho also a Jane suspect.
~Brett Partridge- All a ploy to trap Lisbon
~Lisbon- Taken and marked obviously Janes girl.
~Janes House- Who knows who died and what happend.

**When Jane killed Timothy Carter the world thougt Red John was dead.
So what does this ego maniac do?? Nothing !
He waited until Agent Darcy was snooping around to prove he was alive !
Basically he waited until someone was questioning Jane to prove he was alive .
Most likely knew that jane knew he was alive .

****MY POINT :
Red John only does his ghastly deeds if it somehow relates to Jane.
Otherwise he seems to not have any other agenda.
IT SEEMS AS IF RED JOHN HAS FRONT ROW TICKETS TO JANES LIFE .
LIKE HE IS WATCHING EVERYTHING TRANSPIRE LIKE ITS A MOVIE STARING PATRICK JANE.
IF JANE WAS NOT WORKING, RED JOHN WOULDNT DO ANYTHING !
He would take his 401K ill and retire.

So they say 6x21 (season semi-finale) is called "Retired".
I believe I found a "red" in there...