You may also want to have her tested for celiac disease. Her tummy pains, and bloating are common symptoms of gluten-intolerance. The bile supplements will inevitably change the color of her stools, but may not be actually healing her problems. If it is celiac/gluten-intolerance, the gluten-free diet will eliminate her symptoms and when you are comfortable, you can begin to do some cleanses for her that my help her overcome the intolerance completely.
I would also suggest giving her some digestive enzymes on an empty stomach a couple time a day to help eliminate toxins that my have gotten into her system.