The Spruce Creek Watershed covers 9.6 square miles in Kittery and a small portion of Eliot. It includes Spruce Creek, Hutchins Creek, Wilson Creek, Cutts Pond, and Deering Pond, as well as numerous small streams, ponds and wetlands. Land cover within the watershed includes several small blocks of forest and agricultural land, some of which provide significant habitat for the New England Cottontail. There is significant development within the Spruce Creek Watershed, especially surrounding Route 1 and the Maine Turnpike, and the tidal portion of Spruce Creek. These areas have a high percentage of impervious surface which leads to increased stormwater runoff into the creek.
Spruce Creek is 5.25 miles long and drops 60 feet from its headwaters in Eliot. It passes flow restrictions at the Maine Turnpike and Route 1, where it becomes tidal and brackish. This portion of the watershed is important habitat for waterfowl and wading birds. The creek becomes shallow and broad where at low tide approximately 2.5 square miles of clam flats are exposed along its banks. The state owned site of Fort McClary sits at the mouth of Spruce Creek, where it joins the Piscataqua River.