The karst area in northwestern Guangxi is poor, underdeveloped, and ecologically fragile. It is experiencing rocky desertification, which creates challenges that are more severe than those of other regional ecological environments. In this paper, the ecological footprint (EF) model is used to analyze the ecological carrying capacity (EC) in northwestern Guangxi from 1995 to 2015, and the differences in karst counties with different poverty levels are discussed. The results show that (1) since 1995, the EC of northwestern Guangxi has continued to decrease, the EF has continued to increase, the ecological deficit (ED) has been expanding, and the status of the region has been unsustainable for a long time. (2) The evolutionary patterns, EF and EC of karst counties with different poverty levels are different. The county with the lowest poverty rate has the fastest growth rate of the per capita EF. The county with the largest proportion of karst area has the lowest EC. (3) It is recommended that different types of counties take different measures, including strengthening ecological environment protection, carrying out rocky desertification control and ecological resettlement projects, and reducing energy consumption. This study can provide information for the sustainable development of the karst region and provide decision support for regional poverty alleviation.