Actor
- In the Electric Mist (2009) .... Dave Robicheaux
- Harvard Beats Yale 29-29 (2008) .... Himself
- Oscar, que empiece el espectáculo (2008) .... Hank Deerfield / Ed Tom Bell (archive footage)
- No Country for Old Men (2007) .... Sheriff Ed Tom Bell
- In the Valley of Elah (2007) .... Hank Deerfield
- The Ballad of Esequiel Hernandez (2007) .... Narrator
- A Prairie Home Companion (2006) .... Axeman
- The Three Burials of Melquiades Estrada (2006) .... Pete Perkins
- Le Mis popote (2006) .... Himself (archive footage)
- Man of the House (2005) .... Roland Sharp
- Film '72 Episode dated 24 February 2004 (2004) .... Himself
- The Missing (2003) .... Samuel Jones / Chaa-duu-ba-its-iidan
- The Hunted (2003) .... L.T. Bonham
- Men in Black II (2002) .... Kevin Brown, Agent Kay
- Headliners & Legends: Will Smith (2001) .... Himself
- Space Cowboys (2000) .... Hawk Hawkins
- Rules of Engagement (2000) .... Col. Hayes 'Hodge' Hodges
- The Making of 'Space Cowboys' (2000) ....
- Double Jeopardy (1999) .... Travis Lehman
- Small Soldiers (1998) .... Chip Hazard (voice)
- U.S. Marshals (1998) .... Chief Deputy Marshal Samuel Gerard
- Men in Black (1997) .... Agent K (Kay)
- Volcano (1997) .... Mike Roark
- Batman Forever (1995) .... Two-Face / Harvey Dent
- The 67th Annual Academy Awards (1995) .... Himself - Presenter: Best Actress in a Supporting Role
- The Good Old Boys (1995) .... Hewey Calloway
- Riddle Me This: Why Is Batman Forever? (1995) .... Himself
- Cobb (1994) .... Ty Cobb
- Blue Sky (1994) .... Maj. Henry 'Hank' Marshall
- Natural Born Killers (1994) .... Warden Dwight McClusky
- The Client (1994) .... 'Reverend' Roy Foltrigg
- Blown Away (1994) .... Ryan Gaerity
- Heaven & Earth (1993) .... Steve Butler
- The Fugitive (1993) .... Marshal Samuel Gerard
- House of Cards (1993) .... Jake Beerlander
- Under Siege (1992) .... William Stranix
- Beyond 'JFK': The Question of Conspiracy (1992) .... Himself (also archive footage)
- JFK (1991) .... Clay Shaw / Clay Bertrand
- Lonesome Dove: The Making of an Epic (1991) .... Himself
- Fire Birds (1990) .... Brad Little
- The Package (1989) .... Thomas Boyette
- Lonesome Dove (1989) .... Woodrow F. Call
- Gotham (1988) .... Eddie Mallard
- April Morning (1988) .... Moses Cooper
- Stranger on My Land (1988) .... Bud Whitman
- Stormy Monday (1988) .... Cosmo
- The Big Town (1987) .... George Cole
- Broken Vows (1987) .... Pater Joseph McMahon
- Yuri Nosenko, KGB (1986) .... Steve Daley
- Black Moon Rising (1986) .... Quint
- The Park Is Mine (1986) .... Mitch
- Cat on a Hot Tin Roof (1985) .... Brick Pollitt
- The River Rat (1984) .... Billy
- Nate and Hayes (1983) .... Captain Bully Hayes
- The Executioner's Song (1982) .... Gary Mark Gilmore
- The Rainmaker (1982) .... Starbuck
- Back Roads (1981) .... Elmore Pratt
- Barn Burning (1980) .... Ab Snopes
- Coal Miner's Daughter (1980) .... 'Mooney' Lynn
- Eyes of Laura Mars (1978) .... John Neville
- The Betsy (1978) .... Angelo Perino
- Rolling Thunder (1978) .... Cpl. Johnny Vohden
- The Amazing Howard Hughes (1977) .... Howard Hughes
- Smash-Up on Interstate 5 (1976) .... Officer Hutton
- Jackson County Jail (1976) .... Coley Blake
- Eliza's Horoscope (1975) .... Tommy Lee (as Tom Lee Jones)
- Life Study (1973) .... Gus
- Love Story (1970) .... Hank Simpson (as Tom Lee Jones)
- The Three Burials of Melquiades Estrada (2006) ....
- The Good Old Boys (1995) ....
- The Three Burials of Melquiades Estrada (2006) .... producer
- Man of the House (2005) .... executive producer
- The Good Old Boys (1995) .... (teleplay) &