The invention relates to a method for preparing mono sialic acid hexose ganglioside sodium agent, comprising removing integument and blood vessel from the fresh or frozen pig brain or cattle brain, pushing for dewatering with cold acetone for several times, filtering with organic membrane, pouring out the acetone, and treating into acetone powder, packing, and conserving; extracting clarified solution from acetone powder, filtering with ultra-filter membrane and getting ultra-filtrate, extracting with tobacco extract, sodium filtering with sodium filter membrane to remove small molecule, abandoning the filtrate, getting clean condensed liquid of the mono sialic acid hexose ganglioside sodium agent; sterilizing and getting the refine product. The invention changes the polarity of the extracting organic solvent, which makes the ganglioside be released almost fully into the solution. The invention employs the ionic sodium filter membrane to separate and converse the ganglioside depending on the its number difference in sialic acid and carboxyl groups, and employs modern membrane separation technique to replace filling material and column suction technique, which saves large quantity of solvent and time, and increases productivity.