Although the importance of urban natural and cultural heritage conservation in China has been increasing in recent years, the target-based methods of heritage protection have led to disconnections between heritage and its original cultural context, surrounding environment and heritage clusters, resulting in the loss of some of the originality and integrity of heritage. Therefore, this paper proposes an idea of urban landscape heritage cluster conservation on the basis of the generation mechanism, which bases on a clear understanding of urban landscape heritage and the connotation and characteristics of clusters, and takes the Yangtze River Culture-Art-Bay area in Chongqing as an example. Through historical material and field research, combined with GIS kernel density analysis, the urban landscape heritage was identified, and the different spatial, events, functional association mechanisms and their cluster structures in agriculture, the Republic of China, the early founding of the People’s Republic of China were analyzed. Combined with local conditions such as urban planning, infrastructure and industrial functions, the “heritage-environment” “heritage-heritage” “heritage-city” conservation methods are proposed based on three aspects: comprehensive element protection, reconstruction of structural links, and creation of integration mechanisms, so as to explore a sustainable conservation system based on the generation mechanism of urban landscape heritage with clustering effects, and enrich the local conservation methods and strategies.