In order to meet the growing demand for the electronics market, many new materials have been studied to replace traditional electrode materials for energy storage systems. Molybdenum oxide materials are electrode materials with higher theoretical capacity than graphene, which was originally used as anode electrodes for lithium-ion batteries. In subsequent studies, they have a wider application in the field of energy storage, such as being used as cathodes or anodes for other ion batteries (sodium-ion batteries, potassium-ion batteries, etc.), and electrode materials for supercapacitors. However, molybdenum oxide materials have serious volume expansion concerns and irreversible capacity dropping during the cycles. To solve these problems, doping with different elements has become a suitable option, being an effective method that can change the crystal structure of the materials and improve the performances. Therefore, there are many research studies on metal element doping or non-metal doping molybdenum oxides. This paper summarizes the recent research on the application of hetero-element-doped molybdenum oxides in the field of energy storage, and it also provides some brief analysis and insights.