The 2012 Stony Brook Seawolves baseball team represented Stony Brook University in the 2012 NCAA Division I baseball season. The Seawolves were coached by 22nd-year head coach Matt Senk and played their home games at Joe Nathan Field. The Seawolves clinched their second consecutive regular season championship and their fourth America East Conference Baseball Tournament championship, earning the league's automatic bid to the 2012 NCAA Division I Baseball Tournament, their fourth appearance in school history.