The invention discloses a preparation method of a high-purity porous spherical silica gel filler, comprising the following preparation steps: purification of raw material tetraethoxysilane, synthesisand post-treatment of polyethoxysilane, synthesis of the high-purity spherical silica filler, and washing aging, roasting and drying. The invention provides the preparation method of the high-purity porous spherical silica gel filler. The spherical silica gel prepared by the preparation method has good regularity, and the metal impurity content in the porous high-purity silica gel is determined byusing an ICP full spectrum direct reading plasma emission spectrometer, and is as follows: Al: 3.5 mg/kg, Ca: 1 mg/kg, Fe: 1.5 mg/kg, Mg: 2.0 mg/kg, and Na: 1 mg/kg. The metal impurity content is lower than that of domestic silica gel, and the chromatographic performance is good. Under normal-phase and reversed-phase conditions, the column efficiency is about 65,000, and the peak shape is symmetrical. The high-purity porous spherical silica gel filler can be widely used as a chromatographic filler matrix for rapid separation of chemical or biological macromolecules.