The invention discloses a medicinal wheat yellow wine mold culture and a preparation method thereof. The material components of the mold culture (weight is calculated by kg) are as follows: wheat: 1000, golden cypress: 28 to 32, angelica: 8 to 12, combined spicebush: 37 to 43, tangerine peel: 8 to 10, marshmarigold to leaved beesia herb: 11 to 13, gardenia: 7 to 9, chrysanthemum: 10 to 14, contorta: 7 to 9, sagebrush: 9 to 11, carapace: 9 to 11, cinnamon: 7 to 9, almond: 5 to 7, small sweet herb: 10 to 12, anise tree: 7 to 9, Amomum tsao to ko: 8 to 10, Chinese prickly ash: 2 to 3, thorn seed: 75 to 85 and angelica root: 3 to 5; the integral process flow of the preparation method is raw materials-crushing-mixing-stirring-stepping-yeast production-fermenting-culture stage- ventilation stage-yeasting culture stage-taking out and storage. The medicinal wheat yellow wine mold culture of the invention integrates the advantages of the current wheat, wheat yeast and red rice, the preparation method causes the permeability of yeast base to be good and fermentation to be high active and complete, the yeast preparation process is easy to be controlled and the quality of finished yeast is stable. Yellow wine brewed by using the wheat yellow wine mold culture does not subside and has no suspended matters after a long period of storage, furthermore, the yellow wine tastes good and has stable quality and long quality guarantee period.