Organic farming is a type of agricultural practices based on naturally occurring processes excluding or strictly limiting the use of synthetic fertilizers, pesticides, and other chemicals. This study was conducted to investigate the influences of agro-based materials, effective microorganisms (EM), liquid silicate (LS), and organic liquid fertilizer (OLF) for water dropwort (Oenanthe stolonifera DC.)cultivation. Soil pH, soil organic matter, and plant available phosphorous decreased with LS application. Exchangeable Ca and Mg decreased with EM application, and electrical conductivity and exchangeable Ca and K decreased with OLF application. Most of essential nutrient contents in water dropwort were reduced with the treatments of LS, EM, and OLF as compared with those in control plot, except nitrogen and phosphorus. However, diseases and insect pests were almost not observed in the water dropwort in the agro-based material application plots, except cluster caterpillar (Spodoptera litura). Productivity of water dropwort tended to be reduced: its higher productivity in the OLF and EM+LS plots and lower in the LS and control plots.