Seawater intrusion into Greece’s coastal aquifers is a prevalent issue. The Greek coastline extends for 15,147 km. Once groundwater sources become contaminated, remediation methods are often challenging, costly, and protracted. This study focuses on three coastal aquifer systems in the Peloponnese region. Initially, the main ions and cations were determined for these aquifers. Hydrochemical analyses revealed elevated concentrations of Na+, Mg2+, Ca2+, SO42−, and Cl−, indicating a significant impact from seawater intrusion. The study evaluates the vulnerability of groundwater to this intrusion. Utilizing Geographical Information Systems (GIS) software (ArcGISPro), maps were created to illustrate each parameter of the GALDIT method. The acronym GALDIT encapsulates the main elements influencing seawater intrusion. Each parameter is analyzed as follows: Groundwater occurrence (including the following aquifer types: unconfined, confined, and leaky confined), Aquifer hydraulic conductivity, depth to groundwater Level above the sea, Distance from the shore (inland distance perpendicular from shoreline), Impact of existing status of sea water intrusion in the area, and Thickness of the aquifer. The final map that emerged from this study shows their vulnerability to seawater intrusion in Peloponnese. Notably, Larissos exhibits lower vulnerability in contrast to the seawater incursion in the other two groundwater systems.