A critical review by prominent experts of both the cutting-edge of stem cell biology and the application of stem cells to endocrine diseases, including diabetes, infertility, and liver-associated metabolic disorders. The authors discuss current research to modify stem cells, develop an endocrine-like cell, and use adult bone marrow stem cells to treat autoimmune diseases, including endocrine-based autoimmune diseases. Topics of interest include a review of all stem cell subtypes and their characteristics, approaches to promoting endocrine development from stem cells, and evidence for endocrine cell function from stem cells. The authors also outline how best to develop preclinical studies that will determine the safety and efficacy of stem cell therapies for endocrine disorders.