Electric vehicles and renewable energy consumption have huge demands for high-performance polymer dielectric capacitors. However, the resistivity and breakdown strength of existing polymer dielectrics deteriorate significantly at high temperatures, reducing the energy storage density and charge-discharge efficiency of capacitors below service requirements. The charge transport and molecular chain motion characteristics in linear polymers determine their conductivity, breakdown, and energy storage properties, but the quantitative relationship between them is not clear. An in-situ polymerization method was used to prepare polyimide/Al2O3 nanocomposites (PI/Al2O3 PNCs). Experimental results show that the resistivity, breakdown strength, energy storage density, and charge-discharge efficiency of PNCs increase initially and then decrease with increasing doping content, peaking at 3 wt%. The discharged energy density of PI/Al2O3-3 wt% PNCs at 180°C is 207.52 % higher than pure PI. A conductance-breakdown-energy storage co-simulation model based on charge transport and molecular chain displacement was used to simulate the voltage-current, breakdown, and energy storage characteristics of PNCs. The simulation results are consistent with the experiments. Comparative studies between simulation and experiments show that the independent interface zone between nanofillers and PI hinders charge transport and molecular chain movement, reducing electric field distortion and molecular chain spacing, thereby improving high-temperature breakdown and energy storage performance of PNCs.