To improve the soil properties of physical and microbial community rice bran and wood charcoal were applied in the continuously cultivated plastic film house soil. Soil physical properties were improved by application of rice bran and charcoal compared to chemical fertilizer application (control) by 8~14% in bulk density and 5~9% in soil porosity. Changes in the biological ratio indexes of fatty acids in the soils were detected depending on the inputted materials. Especially in application of rice bran including mixture with charcoal, much more fungi and less bacteria were detected and the ratio of fungi to bacteria was increased, suggesting the more organic carbon metabolically active in these treatments. The high ratio of aerobe to anaerobe suggested the better aerobic conditions were in the soil inputted wood charcoal. From these results, it is important and possible to select some materials for the organic pepper cultivation, which may improve the poor condition soil.