Fecal translplant, not unlike probiotics and attention to the microbiome, might have benefit for granulomatous bowel disease patients (Crohn's Disease and Ulcerative Colitis) but the are no convincing peer-reviewed studies the bring any level 1 evidence to support a given therapy. Many of the studies do indicate promise and that there is a lot we don't know about the subject. I'd say it's on the threshold of moving out of the realm of homeopathic therapy but these things dont' have near enough science behind them to be anything like standards of care.
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