Climate change is one of the most significant issues facing humanity, and an increased number of countries are proactively addressing this problem. Any changes in water resources brought on by climate change would pose a serious risk to a lot of nations. Egypt is one of these nations which will suffer from climate change. One of the consequences of climate change is sea level rise (SLR), which in turn will lead to the advance of shore line in land and more seawater intrusion. The sea water will advance inland, flooding a significant portion of the good lands, and many inhabitants will leave their homes as a result. The Nile Delta is one of the most vulnerable areas to be inundated by sea water due to the flat topographical nature of the area. Moreover, a large part of the water in the Nile Delta aquifer (NDA) will become saline, and the reservoir will become more vulnerable to Seawater intrusion (SWI) Which is affected not only by the rise in sea level and the advance of shore line, but also by the excessive withdrawal from the pumping wells .In this paper (MODFLOW+SEAWAT+ARC GIS) were used to investigate seawater intrusion in Nile Delta aquifer and to determine the position of the new shore line due to 0.25 m and 0.5 m rise of the Mediterranean sea level in Nile Delta. Owing to the lack of data of the topography of the area, because it need high accuracy of Digital Elevation Model (DEM) the position of shore line is obtained based on analyzing the results of saltwater intrusion due to 0.25 m and 0.5 m of sea level rise of recent studies through SEAWAT and the results were exported to ARC GIS to get maps of new shore line.