Fossil pollen and spore records provide highly creditable proxy data to investigate the past environmental changes such as palaeovegetation and palaeoclimate. Pollen database promotes past environmental studies from local to regional and global scales and from qualitative to quantitative reconstructions. This is of great significance on exploring the interactions among past vegetation, climates and anthropogenic disturbances at large spatial scale and long temporal scale, to better understand the evolution of the earth system. In this paper, a fossil pollen dataset of China is compiled, by synthesizing 372 original or digitized fossil pollen records including 790 pollen taxa in China’s land and ocean during the late-Quaternary (since 50 ka BP). The dataset includes site names, latitude, longitude and altitude, pollen data source, sample type, sediment length or span, sample number of each site, dating method and dating number, age span and reference, as well as the fossil pollen percentage of each sampling site. The pollen data, mostly published from late 1980s to present, are concentrated in vegetation regions of temperate and subtropical forests, temperate grasslands, temperate deserts and alpine vegetation on the Qingzang Plateau. Sample sites are distributed at different altitudes from deep sea to high Qingzang Plateau, but the majority of the sites are located between 0–2 000 m. The dataset comprises of 178 raw pollen records (47.8%) and 194 digitized pollen records (52.2%). Pollen samples are mainly from lake sediment (151 sites), alluvial/fluvial sediment (99 sites), and peat (67 sites), accounting for 85.2% of the total sampling sites. Radiocarbon is the main dating method that accounts for 93.8% of total samples, and most of the sites have 2–10 radiocarbon dating data. Each site has an average number of pollen taxa of 19, with the most sites having 4–30 pollen taxa. The temporal and spatial distribution of representative pollen taxa (Pinus, Quercus, Artemisia and Poaceae) reveals increasing trends both in their distributional range and pollen concentration from the last glacial maximum to Holocene, but such trends have various regional patterns in different parts of China. This fossil pollen dataset is a fruitful work of collection of pollen records in most territory of China that conducted by palynologists from China and overseas during the last half century. It consolidates the valuable and fundamental data that can be potentially utilized to explore the evolution of past environments and their driving mechanism of climate change and human disturbance.