The 2016 Southern Jaguars football team represented Southern University in the 2016 NCAA Division I FCS football season.

The Jaguars were led by fourth-year head coach Dawson Odums.

The Jaguars played their home games at Ace W. Mumford Stadium and were a member of the West Division of the Southwestern Athletic Conference (SWAC).

They finished the season 8–3, 8–1 in SWAC play to finish in second place in the West Division.