The invention relates to the technical field of microbial preparation, and discloses an environment-friendly biological agent for secondary fermentation of an organic fertilizer. The environment-friendly biological agent comprises 400-500 parts of pig manure, 70-110 parts of sweet potato seedlings, 60-100 parts of a nitrogen phosphorus potassium fertilizer, 70-100 parts of soybean meal, 20-40 parts of diatomite, 80-120 parts of stone straw, 10-30 parts of saccharides, 10-20 parts of waste fungus spores, 50-100 parts of turf, 50-80 parts of rice hull powder, 30-50 parts of mushroom residues, 15-25 parts of streptococcus faecalis, 4-7 parts of saccharomycetes, 3-5 parts of cellulase, 5-15 parts of cassava residues, 5-15 parts of sawdust, 6-14 parts of distillers' grains, 3-8 parts of wheat bran, 2-4 parts of tobacco powder and 2-4 parts of furfural residues. The environment-friendly biological agent for secondary fermentation of the organic fertilizer has the advantages of being comprehensive in nutrient and capable of achieving the effects of improving soil, improving soil fertility, increasing yield, enhancing quality and the like; and the selenium content of the soil can be remarkably increased by applying a large amount of the environment-friendly biological agent for the organic fertilizer, and therefore, the absorption performance of the soil is improved.