Clay minerals of surface sediments in the South China Sea (SCS) are analyzed with X-ray diffraction, and their transport is explored with a grain size trend analysis (GSTA) model. Results show that clay mineral types in various sedimentary environments have different sediment sources and transport routes. Sediments in the northern SCS (north of 20°N) between the southwest of Taiwan Island and the outer mouth of the Pearl River have high contents of illite and chlorite, which are derived mainly from sediments on Taiwan Island and/or the Yangtze River. Sediments from the Pearl River are characterized by high kaolinite and low smectite content, and most are distributed in the area between the mouth of the Pearl River and northeast of Hainan Island and transported vertically from the continental shelf to the slope. Characterized by high illite content, sediments from Kalimantan Island are transported toward the Nansha Trough. Sediments from Luzon Island are related with volcanic materials, and are transported westwards according to smectite distribution. On the Sunda Shelf, sediments from the Mekong River are transported southeast in the north while sediments from the Indonesian islands are transported northward in the south. Ascertaining surface sediment sources and their transport routes will not only improve understanding of modern transportation and depositional processes, but also aid paleoenvironmental and paleoclimatic analysis of the SCS. Clay minerals of surface sediments in the South China Sea (SCS) are analyzed with X-ray diffraction, and their transport is explored with a grain size trend analysis (GSTA) model. Results show that clay mineral types in various sedimentary environments have different sediments sources and transport routes. Sediments in the northern SCS (north of 20 ° N) between the southwest of Taiwan Island and the outer mouth of the Pearl River have high contents of illite and chlorite, which are derived mainly from sediments on Taiwan Island and / or the Yangtze River. Sediments from the Pearl River are characterized by high kaolinite and low smectite content, and most are distributed in the area between the mouth of the Pearl River and northeast of Hainan Island and transported vertically from the continental shelf to the slope. Characterized by high illite content, sediments from Kalimantan Island are carried toward the Nansha Trough. Sediments from Luzon Island are related with volcanic materials , and are transported westwards according to smectite distribution. On the Sunda Shelf, sediments from the Mekong River are transported southeast in the north while sediments from the Indonesian islands are transported northward in the south. Ascertaining surface sediment sources and their transport routes will not only improve understanding of modern transportation and depositional processes, but also aid paleoenvironmental and paleoclimatic analysis of the SCS.