Water resource pollution by nitrate-nitrogen, mainly caused by anthropogenic causes, induces eutrophication of water resources, and indicates the degree of organic pollution. Therefore, this study devised a method for coating PFSA ionomer with excellent chemical resistance without disassembling the module to improve the removal rate of nitrate-nitrogen in water by using a cyclic coating method on a commercially available nanofiltration membrane (NF membrane) module. Nafion was prepared as a supercritical fluid dispersion using a high-temperature and high-pressure reactor, and the particle size and the degree of dispersion of the dispersion were analyzed by DLS. The crystallinity was confirmed through XRD by drying the dispersion in the liquid state. After the dispersion was prepared as a membrane according to the heat treatment conditions, the characteristics according to the particle size were analyzed by tensile strength and TEM. The nitrate-nitrogen removal rate of the NF membrane module coated with the dispersion was increased by 93% compared to that before coating. Therefore, the result showed that the cycle coating method devised in this study could efficiently coat the already commercialized module and improve performance.