The invention relates to a control method of gentiana rigescens spot blight, which belongs to the technical fields of plant protection and traditional Chinese medicinal material cultivation. The method comprises the following steps: 1. land selection, land preparation and soil disinfection: selecting sandy soil slope land with fertile and loose soil for planting, or cultivating by building a highbox from the flat land, and disinfecting the soil ten days before seeding and transplantation; 2. seed and seedling disinfection: processing seeds before seeding, and disinfecting seedlings before fixing planting; 3. a reasonable planting system as well as normative and scientific field management: carrying out reasonable interplanting, crop rotation for more than three years, reasonable thick planting, intertillage weeding and scientific manuring, preventing water accumulation and cleaning the field in time; and 4. chemical control. The invention adopts an integrated control method of the gentiana rigescens spot blight by combining soil disinfection, seed and seedling processing, agriculture measures and chemical control, and the method has the advantages of prevention of the gentiana rigescens spot blight from a source, good control effect of the gentiana rigescens spot blight as well as high yield and quality of gentiana rigescens, and can be widely suitable for planting gentiana rigescens medicinal herbs.