Answered my own question regarding crossing the San Rafael River. Planning a 4-day overland trip through the Swell over Labor Day, mostly following the route on this site. It looks awesome!!
Hi Ben, I take it there is a bridge crossing the San Rafael River, correct? In my initial question I was under the assumption that there is not, and I was asking about crossing the river.
I can't remember off of the top of my head-- I believe if you read the entire guide it talks about it in there. Going off memory, I think there is at least one river crossing that does not include a bridge, and spotting the appropriate place to cross is the key to making it across safely when water levels are above normal.