- Worked as an advance man in President George Bush's administration and as a bartender, but was fired from both jobs.
- When he was a child, his mother remarried; he was adopted by his stepfather and took his last name, Flanigan.
- Only he and David Hewlett appeared in all 99 episodes of Stargate: Atlantis (2004). Rachel Luttrell was credited in all episodes but did not appear in all of them.
- Graduate of University of Colorado, majoring in history.
- Is a very good skier, as evinced by the fact he won two prizes at the Waterkeepers' Alliance event in Lake Louise in January 2006.
- Of the five original Stargate: Atlantis (2004) regulars, Flanigan is the only American. Torri Higginson, Rainbow Sun Francks, and Rachel Luttrell are all Canadian, and David Hewlett is English (but based in Canada).
- Before going to Hollywood, Flanigan worked briefly at the White House and at Interview Magazine.
- Flanigan and his ex-wife, painter Katherine Kousi, have three sons.
- Playing Lieutenant Colonel John Sheppard on Stargate: Atlantis (2004) (his character received a promotion.) (July 2005)
- Tapped for the lead in the NBC pilot of Sherman's March (2000).
- Appeared in one episode of Birds of Prey (2002), Prey for the Hunter (2002), before fellow Stargate franchise member Carmen Argenziano, of Stargate SG-1 (1997), appeared in the episode Nature of the Beast (2002).
- Playing Major/Lieutenant Colonel John Sheppard on Stargate: Atlantis (2004). (August 2004)
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