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While Bexley lies almost entirely within the Paleozoic limestone region of southern Ontario, the small portion of the Gull River valley north of Silver Lake lying within the township is within the Precambrian Canadian Shield region.
The primary outflow is the continuation of the Gull River and its extensive watershed system downstream through a narrows to Little Boshkung Lake at the south, whose waters eventually flow into Balsam Lake and via the Trent–Severn Waterway to Lake Ontario.