The origins and development of rice cultivation are one of the most important aspects in studying agricultural and socio-economic innovations, as well as environmental change, in East Asian prehistory. In particular, whether wet or dry rice cultivation was conducted is an important consideration of its impact on societies and the environment across different periods and places. In this study, carbon and nitrogen stable isotope analysis of charred crop remains from archaeological sites dating from the Early Bronze Age (ca. 1.1 k BC) to the Proto-Three Kingdoms (ca. 0.4 k AD) was conducted to clarify: (1) if there were any shifts from dry to wet cultivation around 1500 years after rice adoption as previously hypothesized and (2) the difference in stable carbon and nitrogen isotope values between rice and dry fields crops excavated from the same archaeological context to understand the cultivation environment. The result show that stable isotope values of charred rice grains have not changed significantly for around 1500 years. Moreover, rice possessed higher nitrogen stable isotope values than dry crops across all periods. While other potential factors could have influenced the15N-enrichment of soils and crops, the most reasonable explanation is bacteriologic denitrification in anaerobic paddy soil where the rice was grown.