Correct identification of water inrush sources is particularly important to prevent and control mine water disasters. Hydrochemical analysis, Fisher discriminant analysis, and geothermal verification analysis were used to identify and verify the water sources of the multi-aquifer groundwater system in Gubei coal mine, Anhui Province, North China. Results show that hydrochemical water types of the Cenozoic top aquifer included HCO3?Na+K?Ca, HCO3?Na+K?Mg and HCO3?Na+K, and this aquifer was easily distinguishable from other aquifers because of its low concentration of Na++K+ and Cl?. The Cenozoic middle and bottom aquifers, the Permian fissure aquifer, and the Taiyuan and Ordovician limestone aquifers were mainly characterized by the Cl?Na+K and SO4?Cl?Na+K or HCO3?Cl?Na+K water types, and their hydrogeochemistries were similar. Therefore, water sources could not be identified via hydrochemical analysis. Fisher model was established based on the hydrogeochemical characteristics, and its discrimination rate was 89.19%. Fisher discrimination results were improved by combining them with the geothermal analysis results, and this combination increased the identification rate to 97.3 % and reasonably explained the reasons behind two water samples misjudgments. The methods described herein are also applicable to other mines with similar geological and hydrogeological conditions in North China.