The invention belongs to a method for sorting human marrow very small embryonic-like stem cells, which comprises the following steps: under a constant temperature of 4 DEGC, adding 30 milliliters of erythrocyte lysing solution into 10 milliliters of human marrow which is subjected to anticoagulation treatment by heparin saline, uniformly mixing, performing centrifugal separation for 10 minutes, removing supernate, adding 20 milliliters of erythrocyte lysing solution into 10 milliliters of sediment, uniformly mixing, performing centrifugal separation for 10 minutes, removing supernate, obtaining secondary sediment, washing with ethylene diamine tetraacetic acid (EDTA) buffer solution under a condition of 4 DEG C, and obtaining cell suspension; and filtering the cell suspension with 30-micrometer meshes, subjecting the filtrate to centrifugal separation at 4 DEG C for 5 minutes, removing supernate, adding the sediment into the EDTA buffer solution till the volume is 300 to 310 microliter, and obtaining re-suspended cell solution; and performing negative sorting and positive sorting. The method has the advantages of protecting the integrity of very small embryonic-like stem cells, simplifying sorting flow, reducing sorting time, achieving high recovery rate, along with simplicity, practicality and low extraction cost.