I, too, encountered that advisory you mention, though I thought it referred only to the chondroitin sulfate. I was going to commence taking it again for a flare-up of my ankylosing spondulitis (remember when we thought we could only get nailed by one disease at a time?) Either way, I dropped that and went for zylfalmend and nutra-sea high potency fish oil...along with my regular arthrotec. The supplements were more intended to fight the side effects of brachy, but oughta be good for the AS as well.
The point this brings up, again, is the difficulty in getting educated medical advice about combining standard and alternative therapies. I paid $50 for a half hour with a naturopath to have this discussion...and the chondroitin issue never came up. Bless Snuffy, then.
As to the flaxseed oil...if you investigate the Budwig protocol, while it concedes Snuffy's point, it also stresses that you need to throughly mix the oil with a protein such as cottage cheese to acheive positive results.