The invention discloses a new energy priority scheduling method based on the two-stage set combination. The method comprises the steps that basic parameters required by the power generator set combination are acquired; power generator sets are divided into slow sets and fast sets according to the length of start-stop time; the initial time T0 of the long-time set combination is set, and a new energy output prediction sequence value and a system spare capacity configuration sequence value suitable for the long-time set combination are determined; the power generation schedule of each power generator set in the following 120h is determined; the initial time TT0 of the short-time set combination is set, and the new energy output prediction sequence value and the system spare capacity configuration sequence value suitable for the short-time set combination are determined; and the power generation schedule of each power generator set is corrected. According to the method, new energy priority scheduling can be further optimized and the new energy operation level can be enhanced.