Cap rocks with high thermal insulation are important for deep geothermal systems at a depth of 3000‒6000 m. Based on the deep geothermal geological conditions in the Fujian-Guangdong-Hainan area of South China, this study established an ideal geological model of reservoir-cap rock assemblages and simulated the geothermal field distribution of cap rocks of different thicknesses and thermal conductivity. The simulation results show that the vertical geothermal temperature distribution in an uplifted area of a depression was present as inverted mirror reflections relative to the elevated area of the basement. Specifically, the isotherms above the elevated area are convex in shape, while those below the elevated area are concave. There is a temperature equilibrium line between the convex and concave isotherms. The heat flow moves from the depressed area to the uplifted area below the temperature equilibrium line and migrates in an opposite direction above the line. On this base, this study conducted the inversion of geothermal temperature fields in typical areas with thin, moderately thick, and thick cap rocks. The results indicate that, at the depth of 3000–6000 m, areas with thin cap rocks (igneous rock zone in the coastal area of Fujian) mainly host moderate- to low-temperature hydrothermal resources; areas with moderately thick cap rocks (Yuezhong Depression) have the geothermal temperature ranging between 100 °C and 200 °C and may develop moderate- to high-temperature hydrothermal resources and hot dry rocks (HDRs), with the former superimposing on the latter; and areas with thick cap rocks (onshore Beibuwan Basin) have a geothermal temperature of 120‒220 °C, and contains mainly moderate- to high-temperature hydrothermal resources and HDRs. Therefore, it is recommended that the evaluation, exploitation, and utilization of deep geothermal resources be carried out according to the burial depth of the temperature equilibrium line and the specific demand for geothermal resources.