Hi dfumy, it sounds like you’re having trouble digesting protein. Betaine helps with that, but I have a similar problem with it causing heartburn.
I agree that digestive enzymes would probably help, but if protein is the problem you’d need one that contains protease. I use Enzymedica Digest Basic and that has worked well for me. This link has a detailed explanation of enzymes; scroll down for the part about digestion. http://dcnutrition.com/MISCELLANEOUS/DETAIL.CFM?
For healing a sensitive gut you might also add DGL, glutamine, and/or zinc.