Even though green manuring is regarded as one of the promising tactics in the sustainable agricultural system, there is scanty investigate on the effects of integrating green manure with fertilizers, particularly in the red, unfertile soils. In study, influence of two green manure forms of plants (Milk vetch besides Ryegrass) along with applied fertilizers to the total microbial populations, the microbial activity, the microbial biomass, the potential predicted function in the growth, and the incorporation time periods were evaluated. The fertilizer management strategies that were taken into consideration in this study include the organic manure, humic acid, and mineral fertilizers. The results indicated that integrating green manure with organic fertilizers enhanced the bacterial community’s ?-diversity while the fungal community diversity was suppressed. Observations were made showing that green manure affected the growth and incorporation periods of the varying microbial populations that were found in the soil whereby taxa such as sulfur, nitrogen and carbon group were affected. Thus, this study shows the utilization of varieties of green manure plants integrated with fertilizers on the boost of infertile red soil’s microorganisms, and the fertilization process.