Heller has said that it's a Sherlock Moriarty type of set up, and as we know Moriarty isn't the head of a criminal organisation, he's more of a consultant criminal, and on several occasions Red john has been indirectly involved with other crimes in return for loyalty. So while I believe he does have a large network of friends I don't believe he is the head of any organisation, he's more of what Jane is to the CBI. Fearful symmetry indeed. 
I don't as yet have a theory as to how the Tyger club fit in to all of this, but there is definitely something connecting the two. What is the purpose of this group? Why was it set up, and by who? And what connects them to Red John meaning that they have to directly hijack any attempt by Jane, who while works with law enforcement has his own agenda, meaning that he cannot be corrupted, or his information cannot be intercepted by the Tyger club as easily as it would if the Unit was working on it above board. What are they hiding, and how is Red John involved with it?

Ok im tired of alot of people ignorance first things first brett partridge is dead!! some are saying brett partridge was the only one in the house with lisbon in S6e1 The desert rose (wrong) pay close attention when lisbon walks towards the bathroom to open it the door is closed then she hears a noise from the closet brett partridge says tiger tiger The bathroom door squeaks open then lisbon gets grabbed!! lets rewind before partridge's death a room full of 7 pigeons 1 flew out remaining 6 pigeon's 3 Pigeons where together that's the clue i think bruno heller was talking about . in the next episode S6E2 Black winged redbird You'll see these 3 together Gale Bertram ' Sheriff Thomas McAllister & Reede Smith ' When Jane and lisbon are in the park talking about rj you'll see a close up of someone feeding pigeons Sophie miller says jay roth (alias of rj) suffers from acrophobia (fear of heights) which was a lie to gain her trust but he does have some sort of phobia issues that are real ..S6E3 Wedding in red Sheriff McAllister Acts like he's afraid of height's until he saves jane from the roof top...now when jane and lisbon kept trying to get him to go near height''s he must of figured they knew something so he saves jane from the roof ' when he leaves a group of pigeons are on him and he says got i hate those things.. he has a fear of pigeons (ornithophobia) & in S6E4 there are no pigeons seen at all.... Bruno Heller in the other writers on the show do alot of twist and turns to lead us in the wrong direction that's what makes things interesting your going to notice something strange watch this ...Lets look at the five remaining suspects In order of season appearance
1 Bret Stiles S2 (Red All Over)
2 Gale Bertram S3 (Red Sky At Night)
3 Ray Haffner S4 (Little Red Book)
4 Reede Smith S5 (The Red Glass Beed)
5 Sheriff Thomas McAllister S1 E2 (Red Hair & Silver Tape)

The list is in season order until you get to mcallister thats why partridge & kirkland got killed early 
Sheriff Thomas McAllister Is Red John if red john is actually on the list (bruno heller said people will be disappointed when rj is revealed 

Since the list came out, I have been leaning toward Mcallister.  Still am w/ Ray & Bob as a second & third.  However, after last weeks episode, I am curious about this twin brother, Michael.  They spent a lot of time (that I don't think should be ignored) on his childhood, parents, disappearence, etc..  
   Bob said their father was an abusive alcholoic & mother committed suicide.  He got out but Michael did not & became an alcholic himself until he found "a savior".  I'm thinking Visualize.  Michael has a childhood that creates sociopaths.  Bob, himself, who claims to have "gotten out" murdered people himself in a sociopathic manner.  I am assuming they are identical twins since Bob kept asking his "suspects" whether they recognized him. 
  I'm thinking maybe Michael found this something that "saved "him from the path he was on & his new enlightenment created this RJ personality.  He could have (in the beginning) impersonated his brother to get information & build his followers, etc...  Bob said he thought RJ murdered him, but his body was never found, he just disappeared & he (Bob) had been looking for him for 10yrs.  Where did Michael get the money to buy a barn & land in California (expensive I'm thinking) if he was such a alcholic, not amounting to anything.
  Something else that bothers me about that episode is the way Bob ran & let Reed shoot him in the back.  He knew he was going to do it.  Why let it look like he WAS trying to escape.  There would be more explaining to do if he was shoot from the front, but it was like he cowarded up & gave Reed/ or the security gaurd I should say a viable reason to shoot him.  It just seems that he should have stood his ground firmer, but I've never been threaten to be shot so who knows what one would do.  Maybe he suspected his brother deep down & is trying to still protect him.  Maybe he did not want to be alive when they found out who his brother is(RJ?) or deal with the implication brought down on him.  This is fun trying to guess though.
  Michael could have been impersonating Bob in the first episode PJ met him & they shook hands.  PJ said he had never met him, but "Bob" said "I know who you are". 
  Sorry this is rambling & not very organized, in a hurry & wanted to know if anyone else had thought of this.  I need to watch the last episode again.  If this is true though, in puts Bob as "Michael" back on the list.  It would make for a interersting twist.

Just noticed something that a few of RJ's victims have in common--their names sound like a bird.

Martins (martin)
Renfrew (sounds like wren)
Marlon (sounds like merlin)
Partridge

We know one suspect "hates" pigeons. Just thought it was interesting.....

I just awoke from a dream, in which Jane identifies Red John, and it's Sheriff McAllister.  I've never been a strong McAllister advocate in the past, nor even an advocate of Red John actually being on the list.  But apparently, my subconscious thinks it's McAllister.  So there you go, for whatever that's worth.  :)

Collection of thoughts.

Firstly Sheriff is the only suspect Patrick has given specific time to encounter and persay investigate. Well besides going to talk with Kirkland but I believe he had some other reasonings behind Kirkland and he knew Kirkland was not Red John but as we found out also after RJ. Saying this Sheriff is the only one Patrick has gone out of his way to put himself around and observe , I mean he went and took over his crime scene.

Now as I am sure you have read many theories on here and we all know there are all kinds of bones thrown at us each week. But we have to step back and ask a very important question. Who is the smartest person on the show? Who knows the most about Red John? Well Patrick of course! Bruno especially this season is throwing our eyes in so many different directions and we are so caught on certain things or certain people. Are we really observing the most important piece of the puzzle? JANE? What is Jane Doing? What can we draw from his actions and words? Are we so busy chasing pigeons or whistlers and guys that fit the exact descriptions or are we paying attention to the one who KNOWS the MOST?

After thinking on this I think there could possibly be more to Sheriff. For one again Jane has payed the most amount of attention to Sheriff. Think if all the other suspects and how creepy Bruno had made some of theyre appearences yet Jane almost looks past them. He skips over Partridge , he doesnt dwell on Bertram or Reede but who goes out of his way to get himself in direct contact with SHERIFF and to watch and observe him work.

Upon this we also saw some very key things about the sheriff. For one we learned he has a very keen and gifted investigated instince like JANE when observing a victim. Ahhh more than meets the eye. And then at first we have always gotten the idea the Sheriff did not care for Jane oh but the ENDING we see a different side of SHeriff than ever before. So we are tossed around and we think oh it cant be him he acts afraid of heights , but then hes on the roof . WAIT a minute. Well this could perhaps show he has the ability the DECIEVE. So I am not fully saying Sheriff is REd JOhn but I find him most interesting lately and he can be very easy to skip over. 

Also hes a very skilled hunter..... RJ left a pigs head in one of the episodes....

So whether or not my hunches are right. I encourage everyone pay attention to JANE the smartest and closets man to finding the real RJ. Can most of these other trails just be magican assistants with the purpose to leading us off into rabbit trails. Whats Janes paying attention to?

Just a few observations:

McAllister
Shakes hands with right hand
Shoots with right hand

Helps Jane up with left hand

RJ
Uses remote control with right hand
Draws smiley with right hand

Drinks tea with left hand
Poisons Rebecca with left hand
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Just think it's interesting that both McAllister and Red John appear to be ambidextrous!