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Abstract In recent years, the extraction of groundwater (GW) in coastal aquifers has rendered the fragile aquifers more saline due to the sea water intrusion. Groundwater from the coastal aquifers of the Pudhucherry region were sampled to study the process of salinization. An integrated approach was adopted to identify the salinization process, by coordinating the results of borehole geophysics, rainfall pattern, water level variation, hydrochemical characters and multivariate statistical analysis. A total of 136 groundwater samples were collected during two different seasons, southwest monsoon (SWM) and northeast monsoon (NEM). The major cations and anions were analyzed adopting standard procedures. Resistivity and litholog indicate that the southeastern (SE) part of the study region has lower resistivity than in north. Based on electrical conductivity (EC) and total dissolved solids (TDS) values, most of the samples are potable, except for few samples from southeastern region. The study results indicated that higher values of Na, EC, K, SO4, Mg and Cl were observed during NEM, indicating leaching of salt into the aquifer and ion exchange process. The predominant hydrochemical facies of groundwater was Na-Cl and Ca–Mg–Cl type reflecting the saline water and the mixing process of saltwater and fresh groundwater, respectively. Though more number of samples with higher EC was noted in NEM, the results of PCA and correlation analysis indicate the predominance of leaching of salts and intense agricultural activities. The process of sea water intrusion was observed to be dominant during SWM.