To facilitate the sustainable use and effective absorption of earth and stone byproducts from engineering construction projects, and to enhance the preservation and appreciation of natural resources, this study integrates GIS technology and survey big data into the management of earth and stone volumes for engineering construction in mountainous cities within a three-dimensional geographic information framework. A scientific method is proposed for managing these materials in abandoned construction areas. Through field observations, literature review and interviews, this paper explores methods to turn these “waste” materials into valuable resources. Using Chongqing’s Beibei District as a case study within territorial spatial planning, we investigate specialized resource utilization strategies for earth and stone byproducts, analyzing classification, value, and potential benefits. The study also addresses site selection for storage, incorporating ecological restoration of mined areas to maximize spatial planning’s role in guiding, restricting and guaranteeing the implementation of the project. This approach promotes the intensive and efficient use of earth and stone resources.