Variations in the oxygen-isotope composition of paleo-water bodies in the Lake Superior Basin provide information about the timing and pathways of glacial meltwater inflow into and within the Lake Superior Basin. Here, the oxygen-isotope compositions of Lake Superior have been determined using ostracodes from four sediment cores from across the Basin (Duluth, Caribou and Ile Parisienne sub-basins, Thunder Bay trough). The δ18O values indicate that lake water (Lake Minong) at ~10,600–10,400 cal [~9,400–9,250] BP was dominated by glacial meltwater derived from Lake Agassiz and the Laurentide Ice Sheet (LIS). From that time to ~9,000 cal [~8,100] BP, a period associated with formation of thick varves across the Lake Superior Basin, the δ18O values of Lake Minong decreased even further (−24 to −28‰), symptomatic of an increasing influx of glacial meltwater. Its supply was reduced between ~9,000 and ~8,900 cal [~8,100–8,000] BP, and lake water δ18O values grew higher by several per mil during this period. Between ~8,900 and ~8,800 cal [~8,000–7,950] BP, there was a return to δ18O values as low as −29‰ in some parts of the Lake Superior Basin, indicating a renewed influx of glacial meltwater before its final termination at ~8,800–8,700 cal [~7,950–7,900] BP. The sub-basins in the Lake Superior Basin generally displayed very similar patterns of lake water δ18O values, typical of a well-mixed system. The final stage of glacial meltwater input, however, was largely expressed near its input (Thunder Bay trough) and recognizable in dampened form mainly in the Duluth sub-basin to the west. Water in the easternmost Ile Parisienne sub-basin was enriched in 18O relative to the rest of the lake, particularly after ~10,000 cal [~8,900] BP, probably because of a strong influence of local precipitation/runoff, and perhaps also enhanced evaporation. By ~9,200 cal [~8,250] BP, lake water δ18O values in the Ile Parisienne sub-basin were similar to the adjacent Lake Huron Basin, suggesting a strong hydraulic connection between the two water bodies, and common responses to southern Ontario’s shift to warmer and dry climatic conditions after ~9,000 cal [~8,100] BP.