In order to explore the impacts of different management measures on soil organic carbon migration in newly developed Citrus reticulate-based orchards in southern red soil regions, the effects of six management measures on soil erosion and soil organic carbon migration in orchards under the background of natural rainfall were monitored and evaluated, including clear tillage (CB), straw mulch (CS), radish peanut rotation intercropping (CRP), Trifolium strip mulch (CCS), Trifolium mulch (CC) and Bryophyta mulch (CT) in the young Citrus reticulate-based orchards (two years old) located in red soil slope land. Our results showed that: (1) The runoff production of 6 management measures CB, CS, CRP, CCS, CC and CT were 7.88, 4.45, 4.64, 3.24, 3.25 and 4.70 m³, respectively. Compared with CB, the runoff reduction benefits under CS, CRP, CCS, CC and CT measures were 43.51%,41.10%,58.94%,58.82% and 40.38%, respectively; the sediment production was 71.35, 21.27, 31.03, 14.24, 14.18 and 35.05 kg, and the sediment yield was reduced by 70.18%, 56.51%, 80.04%, 80.13% and 50.87%, respectively. (2) The loss intensity of sediment organic carbon was CB (20.75 g/m²), CS (4.78 g/m²), CRP (8.68 g/m²), CCS (3.52 g/m²), CC (3.38 g/m²) and CT (9.94 g/m²), respectively, which decreased by 76.94%, 58.16%, 83.01%, 83.71% and 52.11% compared with CB. (3) The loss intensity of sediment organic carbon and dissolved organic carbon was positively correlated with runoff production (R²=0.412 and 0.419, respectively). Surface management measures affected the migration of soil organic carbon in newly developed orchards in red soil slope mainly by regulating surface runoff generation. In conclusion, both the Trifolium strip mulch (CCS) and Trifolium mulch (CC) had obvious effects on inhibiting soil erosion and soil organic carbon migration loss. This study can provide a scientific basis for controlling soil erosion and soil organic carbon migration loss in newly developed orchards in red soil region of Southern China.