In this paper, we monitored different forms of nitrogen (N) transported by the subsurface flow under three different natural rainfall events and different fertilizations and conducted an associated risk evaluation on environmental health, which provides scientific basis for controlling N non-point pollution and establishing a reasonable fertilization system in purple soil area. The results showed that there were different forms of N transport by subsurface flow under different rainfall events, where in dissolved nitrogen (DN) accounted for about 53.74% - 99.21%, and nitrate (NO3(-) -N) accounted for about 35.70% - 93.65% of DN, and especially under the moderate rainfall, NO3(-) -N could reach 84.09% - 93.65% of DN. The different N fluxes were the highest under moderate rainfall among different rainfall events, in which the flux of total nitrogen (TN), DN, particle nitrogen (PN), ammonia (NH4(+) -N) and nitrite (NO2(-) -N) reached 737.17, 711.12, 26.06, 12.70 and 0.46 mg x m(-2), respectively, and the NO3(-)-N flux was as high as 686.12 mg x m(-2), showing a huge potential threat on groundwater health. Through the risk assessment on N pollution for groundwater quality, we concluded that the straw returning could be used to effectively alleviate the N leaching and groundwater N pollution; especially, the combined application of organic and chemical fertilizer could effectively mitigate the groundwater pollution, improve soil fertility and increase crop yield.