An investigation into the spatial–temporal distribution characteristics of ancient settlements and their relationship with the environment in the Sichuan Basin can enhance our understanding of the evolution of the regional human–land relationship. Utilizing kernel density analysis by GIS, this paper obtained the spatial distribution characteristics of 1100 settlements in the Neolithic, Shang–Zhou, and Qin to Southern Dynasties periods. Subsequently, a GIS spatial analysis was performed to examine the distribution of these settlements in relation to the natural environment, focusing on four aspects: elevation, slope, aspect, and water buffer zone. The results demonstrate that: (1) The distribution of settlements from the Neolithic to the Southern Dynasties has expanded from the Chengdu Plain in the west and the Xiajiang Area in the east to the hilly areas in the center. (2) The settlements in the Neolithic and Shang–Zhou periods are predominantly located at elevations between 300–600 m, slopes between 0–3°, aspects between 135–225°, distances to rivers between 0–1000 m, and soil choice on Luvisols, Cambisols, Regosols, and Anthrosols. The influence of aspect on settlements during the Qin–Southern Dynasties period was notably reduced. The settlements mainly grow in the Chengdu Plain and the smaller plains along the river from the Neolithic to the Southern Dynasties in the Sichuan Basin. (3) The emergence and advancement of primitive agriculture, the construction of early water conservancy facilities, commercial and trade exchanges, and the establishment of regimes led to a shift from a double core to a more dispersed distribution in the Sichuan Basin from the Neolithic to the Southern Dynasties periods. The evolution of settlements reflects the adaption and competition of the residents to the natural environment in the Sichuan Basin. Furthermore, it provides insights into the complex social development in the region, ranging from the formation of early states to the establishment of the Qin and Han Empires.
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