Fibroblast growth factor 19 (FGF19) acts as a novel factor in the regulation of skeletal muscle mass in animal models by regulating energy expenditure. People with obesity have a lower content of FGF19 and lose muscle mass easily. However, as the main energy metabolism organelles, the involvement of mitochondria in the protective effect of FGF19 is still unknown. In this study, the protective effects of FGF19 on palmitate-induced damages in differentiated mouse myoblast cells (C2C12) were studied, including myotube morphology, mitochondrial function and the regulation of pathways and genes. Excessive palmitate resulted in myotube atrophy and activation of the mitochondria-mediated apoptosis pathway in C2C12 cells. Palmitate also inhibited glucose uptake and induced insulin resistance. FGF19 addition during the differentiation of C2C12 cells, returned the palmitate-induced mitochondrial respiration and apoptosis to the control levels and improved the insulin sensitivity. The palmitate-induced upregulation of genes involved in β-oxidation (PPARβ/δ, PPARγ, UCP-1, MCAD) and the downregulation of genes related to myotube atrophy (PPARα, PGC-1α and PGC-1β) were also alleviated by FGF19. In summary, FGF19 prevented excessive palmitate-induced dysfunction of C2C12 cells by protecting mitochondrial overload and apoptosis and maintaining normal insulin signaling.