The 2016 Stephen F. Austin Lumberjacks football team represented Stephen F. Austin State University in the 2016 NCAA Division I FCS football season.

The Lumberjacks were led by third-year head coach Clint Conque and played their home games at Homer Bryce Stadium.

They were members of the Southland Conference.

They finished the season 5–6, 4–5 in Southland play to finish in sixth place.

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