The Tigers finished their season with a 7-11-1 record, their worst record in the 41-year history of the program, but not before they threw the Wake offensive machine off track.
The Demon Deacons went ahead, 1-0, on sophomore Cody Arnoux's 13th goal of the season late in the first half but couldn't put the Tigers away.
"Clemson, for sure, disrupted us," said Wake Forest coach Jay Vidovich. "They stayed very strong and played the game tremendously."
Clemson tied the game on a goal by Michael Brooks in the 72nd minute, setting the stage for a dramatic finish.
The Deacons' service was just too much as Sam Cronin fed U.S. U-20 Julian Valentin for a header off a free kick in the 88th minute, and Marcus Tracy added another goal with less than one minute remaining on a cross from Arnoux to give Wake Forest the 3-1 victory.
"I am proud of the effort and the way we fought, but we made some silly mistakes at the end," said Clemson coach Trevor Adair. "It was typical of our entire season."