Multi-biomarker indexes were analyzed for two piston cores from potential cold seep areas of the South China Sea off southwestern Taiwan. Total organic carbon(TOC) normalized terrestrial(n-alkanes) and marine(brassicasterol, dinosterol, alkenones and iso-GDGTs) biomarker contents and ratios(TMBR, 1/Pmar-aq, BIT) were used to evaluate the contributions of terrestrial and marine organic matter(TOM and MOM respectively) to the sedimentary organic matter, indicating that MOM dominated the organic sources in Core MD052911 and the sedimentary organic matter in Core ORI-_(86)0-22 was mainly derived from terrestrial inputs, and different morphologies were the likely reason for TOM percentage differences. BIT results suggested that river-transported terrestrial soil organic matter was not a major source of TOM of sedimentary organic matter around these settings.Diagnostic biomarkers for methane-oxidizing archaea(MOA) were only detected in one sample at 172 cm depth of Core ORI-_(86)0-22, with abnormally high iso-GDGTs content and Methane Index(MI) value(0.94). These results indicated high anaerobic oxidation of methane(AOM) activities at or around 172 cm in Core ORI-_(86)0-22.However in Core MD052911, MOA biomarkers were not detected and MI values were lower(0.19–0.38), indicated insignificant contributions of iso-GDGTs from methanotrophic archaea and the absence of significant AOM activities. Biomarker results thus indicated that the discontinuous upward methane seepage and insufficient methane flux could not induce high AOM activities in our sampling sites. In addition, the different patterns of TEX_(86) and U_(37)~(K′) temperature in two cores suggested that AOM activities affected TEX_(86)37 temperature estimates with lower values in Core ORI-_(86)0-22, but not significantly on TEX_(86) temperature estimates in Core MD052911. Total-organic carbon (TOC) normalized terrestrial (n-alkanes) and marine (brassicasterol, dinosterol, alkenones and iso-GDGTs) biomarker contents and ratios (TMBR, 1 / Pmar-aq, BIT) were used to evaluate the contributions of terrestrial and marine organic matter (TOM and MOM respectively) to the sedimentary organic matter, indicating that MOM dominated the organic sources in Core MD052911 and the sedimentary organic matter in Core ORI- (86) 0-22 was mainly derived from terrestrial inputs, and different morphologies were the likely reason for TOM percentage differences. BIT results suggested that river-transportation terrestrial soil organic matter was not a major source of TOM of sedimentary organic matter around these settings. Diagnostic biomarkers for methane-oxidizing archaea (MOA) were only detected in one sample at 172 cm depth of Core ORI-86 (86) 0-22, with a bnormally high iso-GDGTs content and Methane Index (MI) value (0.94). These results indicated high anaerobic oxidation of methane (AOM) activities at or around 172 cm in Core ORI -_ (86) 0-22.However in Core MD052911 , MOA biomarkers were not detected and MI values ​​were lower (0.19-0.38), indicated insignificant contributions of iso-GDGTs from methanotrophic archaea and the absence of significant AOM activities. Biomarker results thus indicated that the discontinuous upward methane seepage and insufficient methane flux could not induce high AOM activities in our sampling sites. In addition, the different patterns of TEX 86 and U 37- (K ’) temperature in two cores suggested that AOM activities affected TEX 86 temperature estimates with lower values in Core ORI -_ (86) 0-22, but not significantly on TEX_ (86) temperature estimates in Core MD052911.