So (as of 8/29), you started weight training for the first time ever? Were you doing any exercise at all before starting SS? What were your starting work weights on Day 1? Did you experience DOMS after this workout? If not, when did the DOMS start happening?
Since NSAIDs are not to be taken with UC, if you have DOMS or some other pain do you keep taking Tylenol to be able to sleep?
I'm not sure what you want to know about BCAA's but they'll really only help you insofar as you're diet is low in protein. (I have no idea if there's any special use for them in the context of an autoimmune disorder.) But what "low in protein" means is individualized. That is, the further away you are from young, high T, male the more protein, and in particular leucine, you'll need to drive MPS (Muscle Protein Synthesis). So, it might be helpful to take with a meal, to ensure that MPS is being driven. It would be just as effective however to just increase the amount of protein within that meal, granting that you're not in a weight loss situation and calories aren't a consideration.