Hopefully...found the problem. There is a strip that runs along the top of the side walls that hold the roof membrane down. There is a channel inside the strip, where the screws are, that was filling up with water at the back of the RV. The strip was installed in 2 pieces and just butted up against each other and a little caulk to seal the join. I believe water was getting in where the join was and getting into the channel and filling up in the last couple feet of the channel at the back of the RV. The water could not drain out, so eventually started leaking into the wall of the RV around the screws.
1. Put a lot more sealant around where the 2 strips join.
2. Took out the last 6 screws or so that had a lot of surface rust on them. Filled each of the holes with sealant, cleaned the screws up and screwed back in, and put sealant over the each of the screws.
3. The end of the strip was sealed up so that any water that got into the channel would fill up. Opened up the end of the channel a tad so that the water could drain out. But, hopefully there will not be any.
Heading out this weekend to see if the channel is dry.
2010 Jayco Eagle Super Lite 28.5
2007 Dodge Ram 2500 5.9 CTD