Tobacco as the world’s most important non-food agricultural crop has great economic importance in China. It is a vital manner for tobacco green management using microbial agents to regulate soil properties and control soil-borne diseases.In this study，four beneficial bacterial strains were used to make two compound microbial agents which were determined the effect on soil physical and chemical properties and tobacco black shank. Agent T1 was composed by Bacillus sp. S711，Pseudomonas sp. S1130 and Acinetobacter sp. S1063 while T2 included Bacillus sp. S711，Pseudomonas sp.S1130 and Sphingobium sp. S1191. Both agents T1 and T2 increased the enzymatic activities of soil dehydrogenase，urease and sucrase，and also improved soil microbial biomass carbon and nitrogen，even the intensity of soil respiration. Importantly，the results indicated that T2 was more efficient than T1.Compared to agent T1，T2 specifically increased the enzymatic activity of catalase and decreased soil microbial metabolic quotient. Agent T2 had a high control efficiency at 76.4% for tobacco black shank，which is significantly higher than treated by T1，which had a very low control efficiency at 22.7%.These results suggest that the compound microbial agent T2 would be potentially used in soil management and biological control of soil-borne diseases.