This paper uses a non-expected output EBM ultra-efficiency model to measure the industrial green water resource efficiency of 11 provinces and upper-, middle- and down-stream of Yangtze river economic zone during 2002 to 2018, and employs Kernel-Density to estimate the core density curves, and applies spatial Dubin model under fixed effect to calculate the industrial green water resource efficiency of Yangtze river economic zone on the basis of panel data adaption check, and analyzes its temporal-spatial heterogeneity. The industrial green water resource efficiency varies obviously in different provinces/cites, much higher in down-stream than middle- and up-stream. IGWRE is of outstanding spatial overflow effect, with spatial concentrating in nearby provinces/cities. Decomposition of effect suggests that IGWRE is, directly and indirectly, related to economy, industry, environmental regulations, industrial structure, social investment, foreign openness level and infrastructures.