The paper uses panel data from 2011 to 2020 in counties and cities in Xinjiang, China, and combines the location quotient to measure the level of logistics industry agglomeration in Xinjiang. It uses spatial autocorrelation and the standard deviation ellipse analysis method to analyze the spatial-temporal evolution characteristics of logistics industry agglomeration in Xinjiang, China, and uses multiscale geographically weighted regression (MGWR) models to analyze the factors influencing logistics industry agglomeration in counties and cities in Xinjiang, China. The study shows that the level of logistics industry agglomeration in Xinjiang, China has decreased, and the counties and cities with relatively high levels of agglomeration are mainly concentrated along the railway lines. There is a clear spatial autocorrelation in logistics industry agglomeration in Xinjiang, with the number of H-H clustering areas gradually increasing and concentrated around Urumqi. The number of L-L clustering areas gradually decreases and concentrates in the counties and cities in southern Xinjiang. The evolution direction of logistics industry agglomeration in Xinjiang is stable and shows an expansion pattern of expanding rapidly at first and then slowly. The factors that promote logistics industry agglomeration in descending order of their contribution are economic development, government support, the proportion of the tertiary industry, location factors, the proportion of industry, and human capital. In the future, it is necessary to explore new paths to enhance agglomeration levels in a targeted manner, and formulate corresponding overall policies based on the contribution degree of different influencing factors and whether they have spatial heterogeneity, in order to promote the high-quality agglomeration of logistics industries in counties and cities in Xinjiang.