The invention provides a flicker precision detection method for a digital electric energy quality monitoring terminal and a system thereof. The method comprises the steps that standard signals meeting the IEC61850-9-2 requirement are transmitted to the digital electric energy quality monitoring terminal; sampling is performed on the standard signals by the digital electric energy quality monitoring terminal and an MMS message is outputted; minute data of a short-term flicker index are confirmed according to the MMS message; and a short-term flicker measured value of the digital electric energy quality monitoring terminal is confirmed according to the minute data of the short-term flicker index. The IEC standard, detection precision and dynamic flicker detection capacity of the digital electric energy quality monitoring terminal can be identified, and flicker test capability of the electric energy quality terminal used for a digital transformer substation can be conveniently and rapidly assessed.