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Port Jefferson (informally known as Port Jeff) is an incorporated village in the Town of Brookhaven in Suffolk County, New York on the North Shore of Long Island. Officially known as the Incorporated Village of Port Jefferson, the population was 7,750 as of the 2010 United States Census.
Port Jefferson was first settled in the 17th century and remained a rural community until its development as an active shipbuilding center in the mid-19th century. The village has since transitioned to a tourist-based economy. The port remains active as terminus of the Bridgeport & Port Jefferson Ferry, one of two commercial ferry lines between Long Island and Connecticut, and is supplemented by the terminus of the Long Island Rail Road's Port Jefferson Branch. It is also the center of the Greater Port Jefferson region of northwestern Brookhaven, serving as the cultural, commercial and transportation hub of the neighboring Port Jefferson Station, Belle Terre, Mount Sinai, Miller Place, Poquott, and the Setaukets.
The original settlers of the Town of Brookhaven, based in the neighboring hamlet of Setauket, bought a tract of land from the Setalcott Indians in 1655. The deed included the area of contemporary Port Jefferson along with all other lands along the North Shore from the Nissequogue River eastward to Mount Misery Point.
Port Jefferson's original name was Sowasset, a Native American term for either "place of small pines" or "where water opens.
The first known home within the present village boundaries was erected in the early 1660s by Captain John Scott, an important leader in Long Island's early history. This house, named Egerton, was a grand abode on the western end of Mount Sinai Harbor at Mount Misery Neck. The first settler in Port Jefferson's current downtown was an Irish Protestant shoemaker from Queens named John Roe, who built his still-standing home in 1682. It remained a small community of five homes through the 18th century, and was renamed to "Drowned Meadow" in 1682.
Local lore has it that the pirate Captain Kidd rendezvoused in the harbor on his way to bury treasure at Gardiner's Island.