Morehead State has won numerous championships in the Ohio Valley Conference, the Pioneer Football League and Universal Cheerleading Association. The following is a list of all the championships won by Eagle teams.

Baseball
1957 | 1963 (East Division) | 1964 (East Division) | 1968 (East Division) | 1969 (East Division and Tournament) | 1973 (East Division and Tournament) | 1974 (East Division) | 1976 (East Division) | 1977 (East Division and Tournament) | 1979 | 1983 (North Division and Tournament) | 1985 (North Division) | 1993 (Tournament) | 2015 (Tournament) | 2018 (Tournament) | 2023 (Regular Season)

Beach Volleyball
2021 (regular season)

Men's Basketball
1955-56 | 1956-57 | 1960-61 | 1962-63 | 1968-69 | 1971-72 | 1973-74 | 1982-83 (Tournament) | 1983-84 (Regular Season and Tournament) | 2002-03 | 2008-09 (Tournament) | 2010-11 (Tournament) | 2020-21 (Tournament) | 2022-23 (Regular Season) | 2023-24 (Regular Season and Tournament)

Women's Basketball
1978-79 (In-Season Tournament)

Large Co-ed Cheerleading (Universal Cheerleading Association)
1988 | 1991 | 1992 | 1993 | 1994 | 1995 | 1996 | 1997 | 1998 | 1999 | 2000 | 2002 | 2003 | 2004 | 2005 | 2006 | 2007 | 2008 | 2009 | 2011 | 2012 | 2013 | 2016 | 2017 | 2018 | 2019 | 2020 | 2022 | 2023

All-Girl Cheerleading (Universal Cheerleading Association)
1998 | 1999 | 2001 | 2002 | 2005 | 2007 | 2010 | 2011 | 2014 | 2015 | 2016 | 2018 | 2023 | 2024

Small Co-ed Cheerleading (Universal Cheerleading Association)
2023

All-Girl Cheerleading Partner Stunt (Universal Cheerleading Association)
2003 | 2011 | 2019 | 2022

Co-ed Cheerleading Partner Stunt (Universal Cheerleading Association)
1991 | 2007 (NCA) | 2013 | 2016 | 2017 | 2020

Football
1962 (OVC) | 1966 (OVC) | 2002 (PFL South Division) | 2003 (PFL South Division) | 2004 (PFL South Division) | 2005 (PFL South Division)

Men's Cross Country
1988 | 1995

Women's Cross Country
1979 | 2000

Women's Golf
2011 (Team Champions and individual medalist - Emma Jonsson) | 2012 (individual medalist - Marisa Kamelgarn) | 2023 (Team Champions and individual medalist - Ruth Tonnessen) | 2025 (Team Champions and individual medalist - Tuva Marie Isebakke)

Men's Golf
1970 (Individual medalist - Bill Spannuth) | 1973 (Team Champions and individual medalist - Eddie Mudd) | 1977 | 1981 (Team Champions and individual medalist - Charlie Bowles) | 1993 (Team Champions and individual medalist - Mike Brumfield) | 1999 | 2006 (Individual medalist - Shawn Tipton) | 2018 (Individual medalist - Nick Wilkins) | 2022 (Individual medalist - Joe Muschong)

Rifle
2020 (Overall and Smallbore)

Soccer
2008 (Tournament) | 2009 | 2010 (Regular Season and Tournament) | 2013 (Tournament) | 2023 (Tournament)

Women's Tennis
1981 | 1983 | 1985

Men's Indoor Track and Field
1977

Men's Outdoor Track and Field
1955 | 1956

Volleyball
1987 (North Division and Tournament) | 1988 | 1989 | 1990 | 1993 (Tournament) | 2003 | 2007 | 2008 | 2010 | 2011 (Regular Season and Tournament) | 2012 | 2013 (Regular Season and Tournament) | 2020* (Regular Season and Tournament) | 2021 (Regular Season)

*2020 fall seasons were contested in spring 2021 due to COVID-19.