To demonstrate the effect of excess soil moisture on the decline of a coastal Pinus thunbergii stand in Oshamanbe, southwestern Hokkaido, Japan, soil moisture content was monitored for 4 years. The saturated hydraulic conductivities (KS) of different soil types (coastal sand, supplied topsoil, and buried concreted andosol) and the distribution of the buried concreted andosol layer were investigated. We also examined needle length to verify the real-time response of P. thunbergii to excess soil moisture. Soil moisture content at the heavily damaged site was more heterogeneous than that at the slightly damaged site, and a sensor near the ground always reported a higher soil moisture content at the heavily damaged site than at the slightly damaged site. The buried concreted andosol layer was always found at the heavily damaged site. The KS of the andosol layer was 10−5, suggesting that this layer is less permeable to water, leading to excess soil moisture at this site. P. thunbergii needles from the heavily damaged site were shorter than those from the slightly damaged site, possibly because of water stress. Together with other symptoms observed at the study sites, i.e., crown dieback and intense lateral growth, this information leads us to conclude that the decline of P. thunbergii stands at the heavily damaged site in Oshamanbe was caused by excess soil moisture due to the less permeable buried concreted andosol layer.