You see, Red John has made people speak on his behalf.  Of course those people die soon after.  If you steal Red John's "thunder", you will be killed.  Red John could have been Sheriff McCallister; I would believe it.  From the first time Jane met that Sheriff, McCallister had a problem with Jane.  The odd part about it being McCallister is that McCallister saved him; however, if people were watching, and McCallister did nothing, people might get suspicious.  They'd ask why did you just sit there? or How did Jane die, and why are you here?  It is also plausible to assume that Red John setup McCallister to call Jane with that voice, from the beginning.  The "Blake Association" is cops, so they are going to be watched by cops.  Being around police in a police station will make a criminal careful.  Of course, Red John is only human, and he would eventually slip up.  However, he may still be out there.  If he is still out there, he will be aiming for Jane next.  McCallister did not try to kill Jane with a knife.  I would expect red John to try to use a blade of some sort.  Despite the victory for Jane, there is still the Blake association. I have some doubts as well about McCallister naming his organization: "The Blake Association".  However, it would not be traced back by name to police.  Something like Fraternal Order of Police would tip somebody off. 
Despite the victory for Jane, there is still the Blake association.  The people who were obvious members of Red John's secret organization that Jane shot are not suspects anymore.  We are left wondering if the show picks up as usual, without the hunt for Red John. 

We are also left to wonder about the police that are members of the Blake Association. Their supposed leader is dead, but they are all fugitives.  The three star tattoo is a giveaway.  The show picks up two years later, and something brings them back together.   The last words of "RED JOHN": I will tell you who helped me in the CBI.  Was it Gal Bertram?  We already know! 
Could it be that the three tattoo was just a faction.  I could have sworn that Red John would not have gotten so angry at Jane.  McCallister was cool headed, but Bertram was cool headed.  Everybody was calm.  I saw some anger, when Jane called him a sociopath.  I thought Red John would have laughed.  Consider that Red John murdered his wife and daughter; Red John already has retaliated, so he has no need to express anger. I thought that the voice was a setup.  The episode when Jane gets confronted by Red John while being tied up was a total setup.  It could have been real, but it is just so easy to order subordinates to do your dirty work.  Plus, Red JOhn used a gun to kill those film students, and he didn't leave any faces painted in blood. 
Well if McCallister could pretend to be dead, anyone in the organization could pretend to be dead - supposing that McCallister is not the head of the "Blake Association".  I am suggesting any more serial killers from that association be called Blake Association killer(s).  I prefer no more color adjectives for serial killers, unless it is outside the Blake Association.

We know red John killed someone back in '88.  I am thinking it may have been a father and son killing that started the Red JOhn symbol.  think about the need for an ensignia.  The killer is claiming the kill.  He would do it to protect somebody like a father. 
red John could also be trying to establish a pattern to hang on to someone else by creating an ensignia.  Its a calling card to a crime.  You would have to be subconsciously trying to protect someone elses involvment by taking credit for the crime, or you would be establishing a rapport with law enforcement to try to set somebody up.  If you keep the right frame of mind, you could be prepared for any unforeseeable events.  Red John could be a meticulous serial killer.  I would think that the father son combination would be unlikely.
 
Out on that farm anybody could have been hurting those animals.  Red John was there.  The Police need to identify McCallister as a person who was there.  Did McCallister catch that towns sheriff as a child dealing drugs?  Did he then confront the people who were paying for the drugs?  Is that how McCallister got started?  McCallister could have put the ensignia there to let the boy know that McCallister would take credit for the murders, and he would also let the boy go on drug possession charges.  How does the sheriff never see the red john ensignia?  Did a drug deal go bad, and McCallister cleaned it up?  The key to understanding what happened is in the beginning.  Where did it all start?  Since the first murder took place on Visualize farmland, the real red john has some affiliation with visualize.