Okay, first of all, the last theory we posted about the frog and the pony? 100% joke. We don't really think that's the answer. But we do think that Red John could be Jane's dad.
Red John is a showman and a conman. As we saw in 2x10, "Throwing Fire", no one is more of a showman than Jane's dad. He was a member of the traveling circus, after all. Jane's dad was also shown to be a conman, forcing Patrick to pretend that they had a "healing crystal" that could save a little girl's life.
Plus, Lorelei's body was found at a carnival, and what looked to be murder weapons were visible in the background. Could this possibly be indicating that Lorelei went to that carnival with the purpose of killing Red John? If so, isn't it possible that Red John is Jane's dad? As stated before, he did work with a traveling circus for many years.
However, there is a glitch with this theory. The flashbacks we were shown in 2x10 were from the year 1986; in the episode 5x13, we learned that Red John was most likely working at Elliston Farm in the year 1988. Wouldn't Jane have remembered if his father had worked on the farm? Unless of course, Jane fled the carny life sometime during the time that passed between 1986-1988. Maybe after the incident with the little girl and the healing crystal? We think it's a possibility. What do you guys think?