Corey Raji scored 14 points for the Eagles (12-9, 3-4 Atlantic Coast Conference) and Rakim Sanders added 11.
Trevor Brooks led Clemson (15-6, 3-4)) with 19 points and eight rebounds. Jerai Grant scored 12 points for the Tigers.
Clemson has lost three consecutive games and started out slowly Tuesday. The Tigers saw their early lead slip away as they shot 37.9 percent from the field in the first half. They picked up some steam in the second half, shooting 61.3 percent.
Boston College, however, shot 55.8 percent for the game and was consistent from the free throw line down the stretch.