In fractured bottom water reservoirs during depletion stage, the oil–water interface rises with declining energy. However, variations in this interface, due to natural fracture development and regional differences in oil rates, complicate dynamic tracking and evaluation, posing challenges to enhancing natural water drive development effectiveness. Based on the actual distribution characteristics of natural fractures in reservoirs, this study employs cluster analysis to establish discrete fracture models of different types. Through numerical simulation analysis, it elucidates the characteristics of oil–water interface rise under different fracture patterns and their corresponding controlling factors. The results indicate that, considering factors such as well type, water body scale, fracture development morphology, and fault distribution in production wells, the characteristics of bottom-water rise under different conditions were clarified. The study summarized the impact of factors such as rise speed and morphology on oil production from wells, and identified well type and fracture development morphology as the primary controlling factors influencing bottom-water rise. This study provides theoretical guidance for improving the development of fractured bottom water reservoirs during the depletion phase. This study thoroughly considered the influence of well type and natural fractures on bottom-water rise. The use of a discrete fracture simulation method can enhance the accuracy of dynamic evaluation for such reservoirs and provide theoretical guidance for improving development effectiveness during the natural energy development phase of fractured bottom-water submarine mountain reservoirs.