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Methane seepage activity caused by gas hydrate dissociation plays an essential role in the global carbon cycle and climate change in Earth's history. However, the triggering mechanisms of gas hydrate dissociation remain elusive because of the lack of a relatively complete history of methane seeps on long-term timescales. Here, we present major and trace elements, stable C–O isotopes, and U–Th dating analyses for cold seep carbonates from drill cores in the South China Sea. Our results reveal a 209,00-year-old history of methane seepage activity, which involves multi-stage changes in seepage intensity and methane source (microbial or thermogenic). Chronological data suggest that hydrostatic pressure reduction and dynamic depositional environment mainly controlled the gas hydrate dynamics in the northwestern South China Sea, which is different from the gas hydrate dissociation in the northeastern South China Sea controlled by bottom water warming. This discrepancy may be caused by the differences in physicochemical conditions (e.g., water depth) in different sea areas. Therefore, the findings of this study help to further clarify the relationship between oceanic hydrate reservoirs and environmental change in other world regions. • Seep carbonates from drill cores in the Qiongdongnan Basin were investigated. • Two methane seepage events were identified in the northwestern South China Sea. • Multi-stage changes in seepage intensity and methane source. • Seepage activity controlled by hydrostatic pressure and depositional environment. [ABSTRACT FROM AUTHOR]