It was indispensable to seek effective and feasible measures to alleviate the adverse effects of wastewater irrigation. Nanoscale zerovalent iron (nZVI) and soil nitrogen management might enhance the vegetable yield and quality but mitigate the potential human-disease risks from wastewater irrigation. This study selected the nZVI and nitrification inhibitor as experimental objects. The planted pakchoi cabbage was irrigated with the tap water and wastewater and treated with nZVI and 3, 4-dimethylpyrazole phosphate (DMPP), respectively, the pakchoi cabbage yield and quality, soil enzyme activity and abiotic property, and human-disease risk of bacterial community were quantified. Compared with the control, the nZVI significantly enhanced the pakchoi cabbage yield by 51.5% but reduced the pakchoi cabbage nitrate content by 52.6% under wastewater irrigation condition. The nZVI alone had double-edged sword effects of increasing the pakchoi cabbage yield, reducing the pakchoi cabbage nitrate content and soil human-disease risk but inhibiting the system multifunctionality and soil bacterial community diversity and stability, under wastewater irrigation condition. The nZVI diminished human-disease risk via increasing the soil Firmicutes and Verrucomicrobiota ratios, and the extra DMPP could mitigate the negative effects of nZVI by increasing soil enzyme activity and stimulating soil Acidobacteria ratio. The combinations of nZVI and DMPP could not only enhance the pakchoi cabbage yield and quality but also reduce the human-disease risk of soil bacterial community from wastewater irrigation.