What I think:-

-Season 3 should have been about revealing Red John(Bradley Whitford) but not Killing him.
-Season 4 should have been about Patrick Jane looking for Red John and eventually killing him.

Then finally in Season 5 it should have been about the Blake Association:-
-How Jane finds the 3 dot tattoo on Brett Partridge, Gale Bertram and etc.
-Jane trying to figure out why Red John told him the poem of William Blake.
-Jane finding out about the Blake Association.
-Origins of the Blake Association.
-How did Red John start the Blake Association.
-Jane understanding why Todd Johnson's last words were Tyger Tyger.
-Jane finding out it is the Blake Association password.
-Jane and co eventually taking down the Blake Association.

Then through Season 4 & Season 5 explaining a few things like:-
-Brett Stiles connection to Red John.
-How did Kristina become like a zombie.
-How Red John knew about "Roll Tide".
-"He is mar".
-Why Red John's signature was the smiley face


So what do guys think?