A shallow unconfined low-lying coastal aquifer in southern Finland surrounded by the Baltic Sea is vulnerable to changes in groundwater recharge, sea-level rise and human activities. Assessment of the intrinsic vulnerability of groundwater under climate scenarios was performed for the aquifer area by utilising the results of a published study on the impacts of climate change on groundwater recharge and sea-level rise on groundwater-seawater interaction. Three intrinsic vulnerability mapping methods, the aquifer vulnerability index (AVI), a modified SINTACS and GALDIT, were applied and compared. According to the results, the degree of groundwater vulnerability is greatly impacted by seasonal variations in groundwater recharge during the year, and also varies depending on the climate-change variability in the long term. The groundwater is potentially highly vulnerable to contamination from sources on the ground surface during high groundwater recharge rates after snowmelt, while a high vulnerability to seawater intrusion could exist when there is a low groundwater recharge rate in dry season. The AVI results suggest that a change in the sea level will have an insignificant impact on groundwater vulnerability compared with the results from the modified SINTACS and GALDIT. The modified SINTACS method could be used as a guideline for the groundwater vulnerability assessment of glacial and deglacial deposits in inland aquifers, and in combination with GALDIT, it could provide a useful tool for assessing groundwater vulnerability to both contamination from sources on the ground surface and to seawater intrusion for shallow unconfined low-lying coastal aquifers under future climate-change conditions.