The invention relates to the technical field of wind driven generator blades, and particularly relates to a preparation method of a Balsa wood core material of a wind driven generator blade web. The preparation method comprises the steps of slicing, accurate grinding, dehumidification, double-end sawing treatment and gluing, and after pretreatment, shallow groove forming, punching, cloth pasting,deep groove forming, finished product inspection, template manufacturing, line drawing, edge cutting, mark writing, chamfering, IPQC process inspection, plate separation, dehumidification, laying inspection and packaging and warehousing are sequentially conducted. According to shallow groove forming, a plurality of shallow grooves are formed in at least one surface of the core material and are staggered on the surface of the core material to be arranged in a rectangular grid shape, and through holes penetrating through the upper surface and the lower surface of the core material are punched inthe intersection points of the multiple shallow grooves. According to the preparation method, three times of humidity detection are set, the moisture absorption possibility of the core material in the preparation process is further reduced, the risk of corrosion of bacteria and the like sealed in the core material in the operation process is reduced, and therefore the defects of the Balsa wood core material are effectively overcome.