Sediment cores collected at Lake Kogare-ike, a coastal lake on the Pacific coast of central Japan, record the marine inundation history during the last 3000 years. The sediments consist mainly of organic mud, sand, gravel, inorganic mud, and volcanic ash, and inundation events were recognized as 19 event deposits (E1–E19, from top to bottom) interbedded with the organic mud. Visual observation by naked eyes and X-ray computed tomography (CT) images identified 16 event deposits based on quantitative and qualitative changes in sand contents and changes in the textures and colors of the sediment samples (E1–E3, E5, E6, E8, E9, and E11–E19). The other three event deposits (E4, E7, and E10) were identified only on the CT images as layers with higher radiodensity than the underlying and overlying organic mud layers. The sedimentary features, the spatial bias of the event deposits toward seaward areas, the diatom assemblages, and the frequency of inundation events suggest that 13 (E1–E10 and E12–E14) of the 19 event deposits were formed by tsunamis or extraordinary storms. To constrain the depositional ages of the event deposits, Bayesian age–depth models were constructed based on radiocarbon dating of plant macrofossils and concentrated fossil pollen and the 137Cs profile. The depositional ages of the event deposits indicate that five or possibly six event deposits can be correlated with historical tsunamis along the Nankai Trough: E2, either of E3 or E4, E5, E7, and E9 correspond to the 1707 CE Hoei, the 1605 CE Keicho, the 1498 CE Meio, the 1096 CE Eicho, and the 684 CE Hakuho tsunamis, respectively. E1 was possibly formed by the 1944 CE Showa-Tonankai tsunami, the 1854 Ansei–Tokai tsunami, the 1959 Isewan typhoon, or a combination of two or all three events.