Stetson pushed a run across in the top of the ninth inning to slip past FIU, 2-1, Tuesday night at Infinity Insurance Park.
The Hatters (35-11) won both games from the Panthers (21-23) in the season series.
Eric Foggo's bloop single off Christian Santana (2-3) scored Andrew MacNeil with the go-ahead run in the final frame for Stetson.
The Panthers trailed 1-0 in the bottom of the eighth before tying the score on a wacky sequence.
Eddie Silva and Jose Garcia walked to start the eighth. Lorenzo Hampton, Jr.