in 6x01 when lisbon enters the house where partridge is, there's a "666" and the word "DIE" on the wall.
the "666" is the number of the DEVIL, or better, the BEAST.
remember season 5 finale? ...when Cho asked Sandra about the red john murder, she said:
"did you see in that room?...that was the DEVIL in there"
the other writing on the wall was the word "DIE" and in fact we saw the death of brett partridge and other suspects.
now, a lot of theories already said that if we take the Book of Revelation (13:3) it says:
"I saw one of his heads as it were wounded to death, and his deadly wound was healed: and all the world wondered after the BEAST" (the great red dragon: the number of the beast is 666)
the next episode is THE GREAT RED DRAGON
if this was the real clue heller was talking about, one of the 4 "probably dead" suspects will come back as red john in 6x07
the 4 of them are: Partridge, McAllister, Haffner, Stiles (kirkland is out of the list, smith killed him)
in my opinion partridge could be the best red john, but I think he's really dead... he had to die because RJ wanted to lead patrick to the "tyger tyger" group, and now jane thinks that RJ is one of them while in fact is not.
stiles would be great, he even said that he will come back after the death... but he's too old to be RJ
mcallister is another possible great red john, but if my theory is right it can't be him because someone shot him...
...and that person is the last one, haffner.
he was the first to show his shoulder (for obvious reasons, he had no tattoo), because he tricked patrick into thinking that RJ is one of the tygers, so that he could be free from any suspects.
he was the one who shot mcallister (bertram and smith are still alive, they will appear in the following two episodes) in jane's house, because he feared that one of the 3 tygers would reveal his identity under the shotgun threat.
I don't know if he will be confirmed as dead in 6x07, for now we only know that the promo said he died because of the explosion, but anything's possible... my bet is on Ray Haffner.