The Sea Scouts BSA National Flagship program was created in conjunction with the Boat Owners Association of the United States. The National Flagship is presented in recognition of excellence in program quality, youth achievement, and adult commitment.

The National Flagship is recognized by receipt of the national Flagship Trophy, a National Flagship Flag emblazoned with four national stars, and the designated shoulder patch for members of the unit. The National Flagship is accompanied by the National Flagship Fleet which recognizes runners-up for the award.

Winners

• 2022 - Ranger, Ship 8009, Belleville, Illinois
• 2021 - Seafarers Commitment, Ship 1959, Baltimore, Maryland
• 2020 - Ship 198, Lewes, Delaware
• 2019 – Confluence, Ship 16, Hampton, Virginia
• 2018 – Unique, Ship 1, Palestine, Texas
• 2017 – Dominion, Ship 100, Manassas, Virginia
• 2016 – Viking, Ship 100, San Francisco, California
• 2015 – Enterprise, Ship 1000, Rockwall, Texas
• 2014 – Dragonlady, Ship 1942, Arlington, Virginia
• 2013 – Makai, Ship 700, San Leandro, California
• 2012 – Albatross, Ship 72, Martinez, California
• 2011 – Tsunami, Portland, Oregon
• 2010 – Minnow, Houston, Texas
• 2009 – Renegade, Newport Beach, California
• 2008 – Indomitable, Bay Village, Ohio
• 2007 – Dragonlady, Arlington, Virginia
• 2006 – DelMar, Newport Beach, California
• 2005 – Arcturus, Westover, West Virginia
• 2004 – Jolly Roger, Houston, Texas
• 2003 – Gryphon, Redwood, City, California
• 2002 – Invincible, Houston, Texas