The 2003 Jacksonville Dolphins football team represented Jacksonville University as a member of the South Division of the Pioneer Football League (PFL) during the 2003 NCAA Division I-AA football season. Led by sixth-year head coach Steve Gilbert, the Dolphins compiled an overall record of 4–6 with a mark of 1–2 conference play, and tied for second in the PFL's South Division. Jacksonville played home games at D. B. Milne Field in Jacksonville, Florida.

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