The invention relates to a hydrophobic starch-nanometer calcium carbonate compound and a preparation method thereof, and belongs to the technical filed of hydrophobization temporary plugging. The preparation method of the compound comprises the following steps: placing 1000-2000g of starch in a kneader, sequentially adding 100-200g of sodium carbonate, 100-200mL of water and 125-250mL of ethanol, and carrying out a closed kneading reaction at a preset temperature; sequentially adding 125-250mL of ethanol and 150-300Ml of benzoyl chloride, and carrying out a closed kneading reaction at 30-40DEG C; slowly adding 500-1500g of nanometer calcium carbonate, and carrying out a closed kneading reaction at 30-50DEG C; and stopping stirring, cooling to room temperature, allowing the obtained material to stand for 3-6h, discharging the material, washing, drying, and crushing to obtain a product. The product has a same substitution value with products obtained through an organic solvent method, can effectively reduce the oil phase starting pressure, increases the oil water passing ratio, maintains high permeability restoration ratio, and has a good reservoir protection effect.