To disclose the pore distribution characteristics of different lithofacies lacustrine shales, ten samples collected from the Shahejie Formation, Dongying Sag, Bohai Bay Basin, China, were examined using argon ion beam milling−scanning electron microscopy (SEM). A quantitative method was adopted to characterize shale pore distributions based on the SEM images. Mercury intrusion capillary pressure was employed to determine the pore throat size distributions of the shales. The SEM images indicated that in shale reservoirs, interparticle pores at the edges of brittle particles and intraparticle pores in clay mineral aggregates primarily contribute to the reservoir spaces and that in calcite-rich shales, dissolution pores provide secondary reservoir space. Among the morphologies of dissolution, intraparticle, and interparticle pores, the morphology of the dissolution pores is the simplest, followed by those of intraparticle and interparticle pores in that order. Clay and felsic minerals primarily control the shale pore sizes and the larger the clay mineral content in the shales, the smaller their pore size; the felsic minerals demonstrate the opposite behavior. The image-based point counting data indicate that shale pore sizes are mostly between 20 nm and 2 μm. In contrast, most pore throats are less than 20 nm in diameter, implying that the pores in the nanometer to micrometer scales are connected by tiny throats. Among the four lithofacies shales, felsic-rich shales are favorable for shale oil accumulation and seepage because of their large pore sizes and throats their ability to form intercalated shale oil adjacent to organic-rich shales. Calcareous shales with a large number of dissolution pores and a large content of organic matter could produce self-generation and self-storage matrix shale oil and would typically develop fractures, thereby creating a seepage channel for shale oil. This study presents the micro-distributions of different lithofacies of shale pores, which would help in understanding the occurrence and seepage of oil in shale reservoirs.