In recent years, soil microbial fuel cells (Soil-MFCs) have attracted attention due to their simultaneous electricity production and contaminant removal functions, but soil electron transfer resistance limits their contaminant removal effectiveness. To overcome the above-mentioned drawbacks, in this study, a dual-chamber Soil-MFC was constructed using atrazine (ATR) as the target contaminant, and the electrochemical performance of Soil-MFC and ATR removal were enhanced by semiconductor mineral addition. Analysis of atrazine was performed in soil using HPLC and GC-MS, and analysis of metallic minerals using XPS. Anodic microorganisms were determined using high-throughput sequencing technology. The results showed that the addition of Fe3O4 increased the maximum output voltage of the device by 2.56 times, and the degradation efficiency of atrazine in the soil to 63.35%, while the addition of MnO2 increased the internal resistance of the device and affected the current output, and these changes were closely related to the ion dissolution rate of the semiconductor minerals. In addition, the addition of both minerals significantly increased the relative abundance of both Proteobacteria and Bacteroidota, and Fe3O4 simultaneously promoted the significant enrichment of Firmicutes, indicating that the semiconductor minerals significantly enhanced the enrichment of electroactive microorganisms near the anode. The structural equation modeling indicated that the semiconductor minerals achieved efficient degradation of ATR in the soil through a synergistic mechanism of metal ion leaching and microbial community structure changes. The detection of ATR and its degradation products in soil revealed that the degradation of ATR mainly included: (1) hydrolysis of atrazine by microorganisms to generate dehydroxylated atrazine (HYA); (2) reduced to diethyl atrazine (DEA) and diisopropyl atrazine (DIA) by extracellular electron reduction and re-dechlorination and hydrolysis to HYA. Semiconductor minerals make an important contribution to promoting microbial activity and extracellular electron reduction processes. The results of this study strengthen the power production and ATR removal efficiency of the Soil-MFC system and provide important theoretical support for the on-site removal of organic pollutants and the sustainable application of converting biomass energy into electricity.