| Year | Song | Album |
|---|
| 1977 | "Luckenbach, Texas (Back to the Basics of Love)" (with Waylon Jennings) | Ol' Waylon |
| 1978 | "One Paper Kid" (with Emmylou Harris) | Quarter Moon in a Ten Cent Town |
| 1979 | "Waltz Across Texas" (with Ernest Tubb) | The Legend and the Legacy |
| 1983 | "Just to Satisfy You (with Waylon Jennings) | Waylon and Company |
| 1984 | "Seven Spanish Angels" (with Ray Charles) | Friendship |
| "To All the Girls I've Loved Before" (with Julio Iglesias) | 1100 Bel Air Place |
| 1985 | "Are There Any More Real Cowboys" (with Neil Young) | Old Ways |
| 1986 | "I Hate Love" (with David Allan Coe and Waylon Jennings) | Son of the South |
| 1987 | "I'm Sending You a Big Bouquet of Roses" and "I'm So Lonesome I Could Cry" (with Jack Walrath) | Master of Suspense |
| 1994 | "A Foggy Day" (with Frank Sinatra) | Duets II |
| "Man with the Blues" (with Buckwheat Zydeco) | Five Card Stud |
| 1995 | "Rainy Day Blues" (with Tab Benoit) | Standing on the Bank |
| "These Eyes" (with Ray Wylie Hubbard) | Lost Train of Thought |
| "Fire to Fire" (with Tanya Tucker) | Fire to Fire |
| 1996 | "The Warmth of the Sun" (with The Beach Boys) | Stars and Stripes Vol. 1 |
"Give Me Back My Job" (with Carl Perkins, Bono, Johnny Cash & Tom Petty)
| Go Cat Go [17] |
| "Matchbox (with Carl Perkins) |
| "Wild Texas Wind" (with Carl Perkins) |
| "All Night Long" (with Jimmy Sturr) | Polka! All Night Long |
| "Big Ball in Cowtown" (with Jimmy Sturr) |
| "Tavern in the Town" (with Jimmy Sturr) |
| "Nickel and a Spoon" (with Alejandro Escovedo) | With These Hands |
| 1997 | "Pretty Paper" (with Asleep at the Wheel) | Merry Texas Christmas, Y'all |
| "Silent Night" (with Asleep at the Wheel and Don Walser) |
| "Night Life" (with B.B. King) | Deuces Wild |
| 1998 | "The Borderline" (with Chris Ledoux) | One Road Man |
| "The Oldest Baby in the World" (with Donnie Fritts) | Lucky 13 |
| "It Don't Get Any Better Than This" (with George Jones, Waylon Jennings, Bobby Bare and Johnny Cash) | It Don't Get Any Better Than This |
| "Slow Dancing" (with U2) | If God Will Send His Angels |
| "Okie from Muskogee" (with Leon Russell) | Legend in My Time: Hank Wilson, Vol. 3 |
| "He Stopped Loving Her Today" (with Leon Russell) |
| 1999 | "Two Sleepy People" (with Crystal Gayle) | Crystal Gayle Sings the Heart and Soul of Hoagy Carmichael |
| "Where Has My Country Gone" (with Ondar) | Back Tuva Future |
| "Life's Railway to Heaven" (with Patsy Cline) | Duets, Vol. 1 |
| "Old Friends" (with Jeannie Seely) | Been There...Sung That! |
| "Going Away Party" (with Asleep at the Wheel and The Manhattan Transfer) | Ride with Bob |
| 2000 | "On the Other Side" (with Janis Ian) | God and the FBI |
| 2001 | "The Thrill is Gone" (with B.B. King) | Here & There: The Uncollected B.B. King |
| "Marie" (with Townes Van Zandt) | Texas Rain |
| "No Lonesome Tune" (with Townes Van Zandt) |
| "Threadbare Gypsy Soul" (with Pat Green) | Three Days |
| 2002 | "Goodnight Irene" (with the Nitty Gritty Dirt Band and Tom Petty) | Will the Circle Be Unbroken, Volume III |
| "Beer for My Horses" (with Toby Keith) | Unleashed |
| "Silver Eagle Meets the Great Speckled Bird" (with Porter Wagoner) | Unplugged |
| "Family Bible" (with Porter Wagoner) |
| "Whiskey River" (with Trick Pony) | On a Mission |
| "Pretty Paper" (with Carly Simon) | Christmas Is Almost Here |
| 2003 | "For What It's Worth" (with Bill Evans) | Big Fun |
| "If Teardrops Were Diamonds" (with Dwight Yoakam) | Population Me |
| "Write One for Me" (with Ringo Starr) | Ringo Rama |
| "A Showman's Life" (with Gary Allan) | See if I Care |
| "Time Goes By" (with The Mavericks) | The Mavericks |
| "Like a Soldier" (with Johnny Cash) | Unearthed |
| "Pretty Paper" (with Kenny Chesney) | All I Want for Christmas Is a Real Good Tan |
| 2004 | "It Was a Very Good Year (with Ray Charles) | Genius Loves Company |
| "Reno Blues (Philadelphia Lawyer)" (with Merle Haggard) | Haggard Like Never Before |
| "Homesick Blues" (with Bobby Charles) | Last Train to Memphis |
| "Full Moon on the Bayou" (with Bobby Charles and Neil Young) |
| "I Remember When" (with Bobby Charles) |
| "Ambushin' Bastard" (with Bobby Charles) |
| "I Don't See Me" (with Bobby Charles) |
| "La Contestación" (with Los Lonely Boys) | Los Lonely Boys |
| "Such a Much" (with Dr. John and Snooks Eaglin) | N'Awlinz: Dis, Dat or D'udda |
| "Time Marches On" (with Dr. John, B.B. King and the Dirty Dozen Brass Band) |
| "One More Cowboy" (with Dan Hicks & His Hot Licks) | Selected Shorts |
| "She is Still Moving to Me" (with Toots and the Maytals) | True Love |
| 2005 | "Busted" (with Ray Charles) | Genius & Friends |
| "Blueberry Hill" (with Jimmy Sturr) | Shake, Rattle, & Polka! |
| "Stormy Sky" (with Daniel Lanois and Emmylou Harris) | Rockets |
| "Rainbow Connection" (with Paul Williams) | I'm Going Back There Someday |
| "Guardian Angel" (with The Bellamy Brothers) | Angels and Outlaws, vol. 1 |
| 2006 | "In Your Hands" (with Nils Lofgren) | Sacred Weapon |
| "Outlaws" (with Los Lonely Boys) | Sacred |
| "Family Bible" (with Charley Pride) | Pride and Joy: A Gospel Music Collection |
| "Couple More Years" (with Jerry Lee Lewis) | Last Man Standing |
| "I Never Cared for You" (with Del Castillo) | Brotherhood |
| 2007 | "The Lord Knows I'm Drinkin'" (with Bill Anderson) | Whisperin' Bluegrass |
| "On the Road Again" (with Deana Carter) | The Chain |
| "Pancho and Lefty" (with Johnny Bush) | Kashmere Gardens Mud: A Tribute to Houston's Country Soul |
| "Send Me the Pillow You Dream On" (with Johnny Bush) |
| "Willie's Guitar" (with John Anderson and Merle Haggard) | Easy Money |
| "Back to Earth" (with Bobbie Nelson) | Audiobiography |
| "If I Were a Carpenter" (with Sheryl Crow) | Anchored in Love: A Tribute to June Carter Cash |
| "Pretty Paper" (with Asleep at the Wheel) | Santa Loves to Boogie |
| 2008 | "The Willie Waltz" (with Greta Gaines) | Whiskey Thoughts |
| "Lost Highway" (with Kurt Nilsen) | Rise to the Occasion |
| "That Lucky Old Sun (Just Rolls Around Heaven All Day" (with Kenny Chesney) | Lucky Old Sun |
| "Promises, Promises" (with Dr. John) | City that Care Forgot |
| 2009 | "Back to Earth" (with Melonie Cannon) | And the Wheels Turn |
| "Rose in Paradise" (with Chris Young) | The Man I Want to Be |
| "The One That Got Away" (with Gail Swanson) | Simple Truth |
| "Half a Heart" (with Gail Swanson) |
| "This Train" (with Ziggy Marley) | Family Time |
| "Have I Told You Lately That I Love You" (with Amy Hānaialiʻi Gilliom) | Friends and Family of Hawaii |
| "Little Dealer Boy" (with Stephen Colbert) | A Colbert Christmas: The Greatest Gift of All! |
| "(What's So Funny 'Bout) Peace, Love and Understanding" (with Stephen Colbert, Elvis Costello, Feist, Toby Keith, and John Legend) |
| 2010 | "I Know We Won" (with The Doobie Brothers) | World Gone Crazy |
| "Sound of Your Memory" (with Lukas Nelson & Promise of the Real) | Promise of the Real |
| "Fathers and Mothers" (with Lukas Nelson & Promise of the Real) |
| "Homegrown" (with Mishka) | Talk About |
| "Whiskey River" (with Jerry Lee Lewis) | Mean Old Man |
| "If You See Me Getting Smaller" (with Jimmy Webb) | Just Across the River |
| "Truck Driver's Blues" (with Asleep at the Wheel and Leon Rausch) | It's a Good Day |
| "Merry Christmas Baby" (with Jessica Simpson) | Happy Christmas |
| "Touch Me" (with Juice Newton) | Duets: Friends & Memories |
| "Funny How Time Slips Away" (with Juice Newton) |
| "Lady Be Good" (with Johnny Gimble) | Celebrating with Friends |
| "King Cotton Blues" (with 7 Walkers) | 7 Walkers |
| 2011 | "Working Man Blues" (with Merle Haggard) | Working in Tennessee |
| "Don't Call Me" (with Heather Myles) | In the Wind |
| "I'll Shut Up Now (with The Dirt Drifters) | This Is Our Blood |
| "Family Bible" (with The Blind Boys of Alabama) | Take the High Road |
| "Behind Me Now" (with Amos Lee) | Mission Bell |
| "On the Sunny Side of the Street" (with Tony Bennett) | Duets II |
| "Superman" (with Snoop Dogg) | Doggumentary |
| "Road to Surrender" (with Randy Travis and Kris Kristofferson) | Anniversary Celebration |
| "To All the Girls I've Loved Before" (with Julio Iglesias) | 1 |
| 2012 | Easy" (with Lionel Richie) | Tuskegee |
| "Ragged Company" (with Grace Potter & the Nocturnals) | The Lion the Beast the Beat |
| "Honky Tonk Kid" (with Aaron Watson) | Real Good Time |
| "Don't You Ever Get Tired (Of Hurting Me)" (with Jamey Johnson) | Living for a Song: A Tribute to Hank Cochran |
| "Everything But You" (with Jamey Johnson, Vince Gill and Leon Russell) |
| "Living for a Song" (with Jamey Johnson, Hank Cochran, Merle Haggard and Kris Kristofferson) |
| "Blue Eyes Crying in the Rain" (with Jack Johnson and Ben Harper) | Jack Johnson and Friends – Best of Kokua Festival |
| 2013 | "Hard to Be a Hippie" (with Billy Currington) | We Are Tonight |
| "Coconut Tree" (with Kenny Chesney) | Life on a Rock |
| "Crazy" (with Paul Anka) | Duets |
| 2014 | "Solo Un Momento" (with Vicentico) | Ultimo Acto |
| "Songbird" (with Eric Clapton) | The Breeze: An Appreciation of JJ Cale |
| "Starbound" (with Eric Clapton and Derek Trucks) |
| "Only Me" (with Rhonda Vincent) | Only Me |
| "Hard to Be an Outlaw" (with Billy Joe Shaver) | Long in the Tooth |
| "Bubba Garcia's" (with Bill Anderson) | Life! |
| "Make You Feel My Love" (with Engelbert Humperdinck) | Engelbert Calling |
| "Troublesome Waters" (with Carlene Carter) | Carter Girl |
| "It Ain't You" (with Ray Benson) | A Little Piece |
| 2015 | "Bloody Mary Morning" (with Kinky Friedman) | The Loneliest Man I Ever Met |
| "When I Go" (with Judy Collins) | Strangers Again |
| "Navajo Trail" (with Asleep at the Wheel and The Quebe Sisters Band) | Still the King: Celebrating the Music of Bob Wills and His Texas Playboys |
| "Are You Sure" (with Kacey Musgraves) | Pageant Material |
| "In Texas" (with T.G. Sheppard) | Legendary Friends & Country Duets |
| "Twelve Days of Christmas" (with Rhonda Vincent) | Christmas Time |
| 2016 | "Sinner" (with Aaron Lewis) | Sinner |
| "Last Night I Had the Strangest Dream" (with Charles Lloyd & the Marvels) | I Long to See You |
| "Lay Me Down" (with Loretta Lynn) | Full Circle |
| "I Want to Spend My Life with You" (with Frankie Miller) | Frankie Miller's Double Take |
| "Night Life" (with Cyndi Lauper) | Detour |
| "A Willie Nice Christmas" (with Kacey Musgraves) | A Very Kacey Christmas |
| 2024 | "SMOKE HOUR ★ WILLIE NELSON" (with Beyoncé ) | Cowboy Carter |
| "SMOKE HOUR II" (with Beyoncé ) |
