A particle-tracking model based on high-resolution ocean flow data was used to investigate particle residence times and spatial distribution of settling sediment for two geo-morphologically different Swedish coastal areas. The study was a part of a safety assessment for the location of a future nuclear-waste repository, and information about the particle-transport patterns can contribute to predictions of the fate of a possible leakage. It is also, to our knowledge, the first time particle-transport differences between two coastal areas have been quantified in this manner. In Forsmark, a funnel-shaped bay shielded by a number of islands, the average residence time for clay particles was 5 times longer than in the modeled part of Simpevarp, which is open to the Baltic Sea. In Forsmark, <10 % of the released particles left the domain compared to 60–80 % in Simpevarp. These site-specific differences will increase over time with the differences in land uplift between the areas.