In this study, the temporal variation in soil salinity dynamics was monitored and analyzed using electromagnetic induction (EMI) in an agricultural area in Port Said, Egypt, which is at risk of soil salinization. To assess soil salinity, repeated soil apparent electrical conductivity (ECa) measurements were taken using an electromagnetic conductivity meter (CMD2) and inverted (using a time-lapse inversion algorithm) to generate electromagnetic conductivity images (EMCIs), representing soil electrical conductivity (σ) distribution. This process involved converting EMCI data into salinity cross-sections using a site-specific calibration equation that correlates σ with the electrical conductivity of saturated soil paste extract (ECe) for the collected soil samples. The study was performed from August 2021 to April 2023, involving six surveys during two agriculture seasons. The results demonstrated accurate prediction ability of soil salinity with an R2 value of 0.81. The soil salinity cross-sections generated on different dates observed changes in the soil salinity distribution. These changes can be attributed to shifts in irrigation water salinity resulting from canal lining, winter rainfall events, and variations in groundwater salinity. This approach is effective for evaluating agricultural management strategies in irrigated areas where it is necessary to continuously track soil salinity to avoid soil fertility degradation and a decrease in agricultural production and farmers’ income.