The invention discloses a soil conditioner for degrading pesticides in soil with microorganisms. The soil conditioner is prepared from, by mass, 100-200 parts of organic fermented manure, 3-5 parts of trace fertilizer, 2-5 parts of bentonite, 5-7 parts of phosphate rock powder, 3-5 parts of amino acid and 0.1-1 part of microbial flora, wherein the microbial flora is composed of pseudomonas fluorescens, rhodopseudomonas palustris, alcaligenes faecalis, pseudomonas putida, bacillus licheniformis, spherical lysine bacillus, bacillus subtilis and bacillus cereus. The soil conditioner is prepared by compounding various microbial strains, the organic fermented manure, the trace fertilizer, amino acid, the bentonite and the phosphate rock powder, and can degrade the chemical pesticides in the soil, such as organic phosphorus pesticides, heterocyclic pesticides, phenol pesticides and aromatic pesticides, and remedy the pesticide-contaminated soil.