Carbon (C) and nitrogen (N) inputs to farmland via fertilizer application are potential sources of C and N that influence soil acidification and water eutrophication. A pilot study was conducted to compare the effects of compound fertilizer and rapeseed cake organic fertilizer on C and N preservation in the soils and runoff of a tea plantation as well as the C and N isotopic fractionation in soils over the three annual cycles of fertilization and tea-leaf harvest. Overall, rapeseed cake organic fertilization effectively increased the pH, total organic matter, NH4-N and NO3-N in soils by 2.19-4.29%, 8.04-21.14%, 53.65-100.32% and 5.74-54.08%, respectively, but decreased NH4-N inputs in runoff by 10.36-25.12% and NO3-N inputs in runoff by 8.94-24.10% relative to the same rate of pure N in compound fertilizer. Before fertilization in February, the average delta C-13 and delta N-15 were -25.15 parts per thousand and 1.88 parts per thousand, while after a full year of fertilization and tea-leaf harvesting in October, the average soil delta C-13 and delta N-15 contents were -23.83 parts per thousand and -0.33 parts per thousand after compound fertilization and -26.22 parts per thousand and 1.64 parts per thousand after rapeseed cake organic fertilization, respectively, indicating the evident effects of fertilization on the isotopic fractionation in soil. In addition, the fractionation extent was positively associated with the fertilization rates under both fertilizers. However, the two fertilization types had different effects on the C and N isotope fractionations, with rapeseed cake organic fertilization contributing more to delta C-13 (21.07-81.80%) but less to delta N-15 (18.20-78.93%) and compound fertilization presenting the opposite results (1.88-46.18% and 53.82-98.12%, respectively). This study demonstrates that rapeseed cake organic fertilization can better preserve soil C and N pools while reducing their runoff in tea plantations, which may greatly hinder the regional soil acidification and water eutrophication trends. (C) 2020 Elsevier B.V. All rights reserved.