Electrochemical impedance spectroscopy (EIS) is a widely used technique to measure the properties of materials in electrochemical systems. However, the obtained quantities are difficult to directly connect to the microstructure-level phenomena. In this work, detailed electrochemical microstructure simulations were performed to investigate the EIS behavior of the phaseseparating graphite electrodes. The Cahn−Hilliard phase-field equation was employed to model Li transport in the graphite particles. In graphite electrodes that were in single-phase stages, the obtained charge-transfer resistance reflected the total active surface areas. The effect of pore tortuosity, which dominates an electrode's high-rate performance, cannot be reflected in the EIS behavior. In twophase coexistence graphite electrodes, when phase boundaries were present on the particle surfaces, the simulations exhibited an inductive loop on the simulated EIS curve. In the core−shell phase-morphology cases, the EIS measurements reflected only the properties of the shells. The resulting EIS curves are indistinguishable from those in the single-phase cases. While Fick's law of diffusion has been mistakenly employed to model Li transport in phase-separating graphite electrodes, our simulations showed that the EIS curves obtained using the Fickian diffusion model are very similar to those obtained using the Cahn−Hilliard phase-field model. This presented tool provides unprecedented detailed simulations to connect the intrinsic material properties, the electrochemical processes in the microstructures, and the resulting EIS behavior.