The South China Sea (SCS) is sensitive to the East Asian monsoon (EAM) and changes in the Western Pacific. However, because of the difficulty of sampling and lack of data in the central SCS, many uncertainties remain the primary driving force of paleoclimatic variations. Here, a sediment core JL136, from the central SCS, was used to evaluate variations of sea surface temperature (SST) and salinity (SSS) during the Holocene, and then the corresponding influencing factors were analyzed, based on measured Mg/Ca ratio and stable isotopic compositions (δ¹⁸O and δ¹³C) of planktonic foraminifera Globigerinoides ruber sensu stricto (s.s.). The results show that the Mg/Ca-SST change is consistent with the speleothem δ¹⁸O records across most Asian monsoon regions on the Holocene long-term trend, revealing that the central SCS record is a response to the East Asian Summer Monsoon (EASM) intensity changes induced by Northern Hemisphere summer insolation (NHSI) variation. During the early Holocene (11.6–8.8 ka), SSS was low with an average of 32.7 psu, which may be related to palaeogeographic variations with sea level changes and the increased coastal water due to the opening of the Taiwan Strait. During the mid-late Holocene, high salinity ocean water was fully exchanged with the SCS due to the influence of high sea level, with an overall higher salinity in the SCS compared with the early Holocene (average 33.8 psu). In addition, the SSS broadly showed an increasing trend, which may be mainly controlled by the weakening EASM intensity and the decreasing precipitation during the low NHSI.