The invention discloses a method for preparing a polyester film for a solar cell backsheet film, which is characterized by comprising the following steps of: mixing 200 to 400 mass parts of binary acid, 80 to 160 mass parts of dihydric alcohol, 0.01 to 0.5 mass part of highly-branched polyatomic alcohol, an esterification catalyst for synthesis of polyester, a polycondensation catalyst and a stabilizing agent and carrying out an esterification reaction; adding 0. 1 to 1.0 mass part of high-grade polyenoic fatty acid or alcohol, continuously esterifying, filtering materials and pressing into a polycondensation kettle for a pre-polycondensation reaction so as to prepare modified polyester resin slices; mixing the modified polyester resin slices and master batch polyester slices according to a mass ratio of 100:5-30; and drying, melting, filtering, extruding, cooling a cast piece, biaxially drawing, performing molding treatment and the like so as to prepare the polyester film for the solar cell backsheet film. The film product has excellent mechanical and electrical performances, heat and humidity resistance, dimensional stability, flame retardant property and water vapor permeability resistance.