Amidst the intensification of strategic mineral exploration, the discovery of concealed and deep-seated deposits within covered areas and the peripheries of existing mines has become a critical challenge and a central focus of contemporary research. “Dongchuan-type” (DCT) copper deposits represent a key mineralization style within the SW Yangtze Block. However, significant exploration breakthroughs have stagnated over the past three decades. Consequently, advanced exploration prediction research is urgently required to guide deep-resource evaluation. Using the Shizishan copper deposit in the Yimen area as a representative case, this study applies the theory of “metallogenic geological body prediction” to construct a tripartite model encompassing “metallogenic geological bodies, metallogenic structures and structural planes, and metallogenic characteristic markers”. The Shizishan deposit is classified as a sedimentary-reformed type, characterized by multi-episodic mineralization involving initial sedimentary processes, non-magmatic hydrothermal activity, and subsequent structural-magmatic hydrothermal overprinting. Key metallogenic geological bodies include ore-bearing stratigraphic associations, basin-margin faults, NE-trending fold–fault systems, and deep-seated concealed intrusions. Metallogenic structural planes comprise primary ore-controlling surfaces, secondary fold-related structures, and potential deep-seated magmatic intrusive interfaces. Alteration patterns display a distinct vertical zonation: shallower levels show medium-to-low temperature hydrothermal processes (silicification, carbonatization, sericitization, and chloritization), whereas deeper portions reveal high-temperature magmatic–hydrothermal indicators, specifically skarnization and intense silicification. This study proposes that the integration of “stratigraphy + structures + concealed intrusions” should serve as the primary criterion for target screening in deep exploration. By integrating geophysical and geochemical datasets into this model, three promising exploration targets were delineated within the Yimen area. These findings provide a refined theoretical framework for large-scale prospecting of DCT.