The invention provides a method for processing wine cube vinasse through coniothyrium minitans fermentation. The method includes the following steps of (1) bacterial strain activation, specifically, inoculating a coniothyrium ninitans bacterial strain on a PDA culture medium, culturing for 10-14 days at the temperature of 18-23 DEG C, and obtaining activated conidium; (2) conidial suspension preparation, specifically, adjusting the concentration of conidium suspension to 105-107 spores/ml; (3) wine cube vinasse processing, specifically, conducting microwave processing on the wine cube vinasse, and conducting sterilization for 20 minutes at a high temperature and a high pressure; and (4) fermentation processing, specifically, adding the conidial suspension in the step (2) into the wine cube vinasse which has been subjected to sterilization processing, making the solid-liquid ratio m:v of the wine cube vinasse to the conidial suspension to be 6-8:1, and conducting fermentation processing for 14-18 days at the temperature of 18-23 DEG C. By adoption of the method for processing the wine cube vinasse, the processing process is simple and convenient, the processing time is short, harmless processing of the wine cube vinasse can be achieved better, the crude protein content in the wine cube vinasse is improved, and rice hulls in the wine cube vinasse can be decomposed well.