Anthropogenic factors such as over-pumping and natural events such as earthquakes impact coastal aquifers by reducing freshwater recharge, aquifer water budgets, and increasing saltwater intrusion (SWI). This study investigates the impact of hydrodynamic forces induced by earthquakes on SWI in one hypothetical case, namely, the Henry problem, and a real case of the Biscayne aquifer located in Florida, USA. The analysis was carried out using the analytical solution of estimating the earthquake’s induced hydrodynamic pressure and applying the SEAWAT code to investigate the SWI for the base case and three scenarios, namely for the horizontal acceleration (αh) by 0.10 g, 0.20 g, and 0.30 g. The results show that earthquakes might considerably increase the SWI in coastal aquifers. Moreover, the rise in salinity across expansive land areas significantly threatens agricultural productivity and jeopardizes food security. Namely, in the case of Biscayne aquifer, salinity was increased by 12.10%, 21.90%, and 45.70% for the horizontal seismic acceleration of 0.1 g, 0.20 g, and 0.30 g, respectively. Hence, the conclusions drawn from this study underscore the need for carefull consideration of earthquake impacts in future planning and water management strategies for coastal regions. This proactive approach is crucial to preemptively address and mitigate the groundwater salinization hazard associated with SWI fluctuations due to earthquakes.