Absolute poverty has historically been solved in China, and the focus on poor areas has shifted to addressing relative poverty. To realize the organic combination of the rural revitalization strategy and relative poverty governance, multi-dimensional relative poverty identification and governance path research at the village scale in an alpine-gorge region is required. For this study, the Nujiang Lisu Autonomous Prefecture’s research area in a typical alpine-gorge was chosen. This paper constructed an evaluation index system for the rural regional system based on location conditions, ecological environment, productive resources, economic base, and public service, based on the theory of multi-dimensional regional poverty and the human–land relationship. The level of poverty, types of poverty, and spatial distribution characteristics of 255 administrative villages were systematically analyzed, and poverty governance paths were proposed. The results show that: (1) There were 215 multi-dimensional relative poverty villages in Nujiang Prefecture, accounting for 84.31% of the total. The relatively poor villages with poverty grades I and II, which are classified as mild poverty, account for 77.21% of all poor villages; this demonstrated that the relatively poor villages in Nujiang Prefecture had a high potential for poverty alleviation. (2) There are 19 different types of constraints in poor villages. Grades III and IV poor villages were mostly found in high-altitude areas. The economic foundation was very weak, the infrastructure was imperfect, the land use type was relatively single, and traffic conditions were relatively backward. (3) The priority model accounted for 16.67% of relative poverty governance, the steady improvement accounted for 28.79%, and key support accounted for 54.54%. Relative poverty governance paths for various counties have been proposed, including rural revitalization priority demonstration, ecological environment governance, eco-tourism, modern agriculture + mountain agroforestry, and improved people’s livelihood and well-being. The findings provided scientific support and direction for future research on the mode and course of relative poverty governance in poor villages in the alpine-gorge area, as well as the rural revitalization strategy’s implementation.