Biofouling of ship hulls is considered as one of the oldest vectors for the transfer of aquatic invasive species. However, the introduction of non-native species by ballast water has received much more research attention. In this study, an alternative approach to dealing with biofouling was proposed for the port of Arzew, based on ship characteristics and transit routes. The strategy consisted of calculation of the surface area of biofouling of all ships calling at the port of Arzew during the period (2013–2016), to which was added spatial modeling using a Geographic Information System to highlight the most relevant information. We identified the areas that represented a high risk of species introduction according to their respective ecoregions of origin; those areas that constituted a minor risk, the type of ship that most likely promotes the establishment of non-native species by comparing the environmental similarity of the ecoregions assigned to the different ships with the environmental characteristics of the port of Arzew obtained by satellite imagery. The study showed that over a period of four years, 5,733 ships called at the port of Arzew, accumulating a total surface area of 35 million square meters. These results can be used for invasive species management purposes; such as: the application of specific regulations on ships of a certain tonnage that most promote the transfer of non-indigenous species, as well as their ecoregions of origin that present a great environmental similarity with the western Mediterranean, in order to minimize the transfer of aquatic invasive species.