At present, China's economic development has entered a "new normal." Exploring Industrial ecological efficiency (IEE) in the background of economic transformation is of great significance to promote China's industrial transformation and upgrading and achieving high-quality economic development. Based on the Super-Efficiency DEA model, this study evaluated the IEE of cities in the Yellow River Basin from 2008 to 2017. Exploratory spatial data analysis methods were used to explore the spatial-temporal evolutionary characteristics, and a panel regression model was established to explore the influencing factors of IEE. The research results showed that: The IEE in the Yellow River Basin exhibited an elongated S-shaped evolutionary trend from 2008 to 2017, and the mean IEE of cities presented a trend whereby Yellow River Basin’s regions could be ranked in the following order: lower reaches > middle reaches > upper reaches. There was significant spatial autocorrelation of the IEE in the Yellow River Basin, and the hot and cold spots showed an obvious "spatial clubs" phenomenon. The results of panel regression show that the influence factors of IEE in the Yellow River Basin showed spatial heterogeneity in their effect.