Deep Run may refer to the following places in the United States:
Alabama Deep Run (Godbolt Creek), a tributary of the Godbolt Creek in Baldwin County
Illinois Deep Run (Ellison Creek), a tributary of the Ellison Creek in Henderson County
Maryland Deep Run, Maryland, an unincorporated community in Carroll County Deep Run (Big Pipe Creek), a tributary of Big Pipe Creek in Carroll County Deep Run (Fifteenmile Creek), a tributary of Fifteenmile Creek in Allegany County Deep Run (Jones Falls), a tributary of Jones Falls in Baltimore County Deep Run (North Branch Patapsco River), at tributary of the North Branch Patapsco River in Carroll County Deep Run (Patapsco River), a tributary of the Patapsco River
New Jersey Deep Run (Alloway Creek), a tributary of Alloway Creek in Salem County Deep Run (Great Egg Harbor River), a tributary of the Great Egg Harbor River in Atlantic County Deep Run (South River), a tributary of South River in Middlesex County Deep Run (Springers Brook), a tributary of Springers Brook in Burlington County
New York Deep Run (Canandaigua Lake), a tributary of Canandaigua Lake in Ontario County
North Carolina Deep Run, North Carolina, an unincorporated community in Lenoir County Deep Run (Broad Creek), a tributary of Broad Creek in Beaufort County Deep Run (Dawson Creek), a tributary of Dawson Creek in Pamlico County Deep Run (Upper Broad Creek), a tributary of Upper Broad Creek in Craven County
Pennsylvania Deep Run (Tohickon Creek), a tributary of Tohickon Creek in Bucks County
Virginia
Deep Run Baptist Church, a historic church in Henrico County Deep Run Park, a public park in Henrico County