| 1985-10-19
| Hallwalls ("Andy Warhol's 'Lower East Side Sampler'") | Buffalo, NY | |
| 1987-01-24
| Varsity Music Hall | Tuscaloosa, AL | |
| 1987-04-17
| Parody Hall | Kansas City, MO | |
| 1987-11-28
| Markthalle | Hamburg, Germany | |
| 1988-10-23
| St. Andrew's Hall | Detroit, MI | |
| 1989-03-26
| Biskuithalle ("Lords of Independence" music festival) | Bonn, Germany | |
| 1990-02-18
| Markthalle | Hamburg, Germany | |
| 1990-02-27
| Rheingoldhalle | Mainz, Germany | |
| 1990-03-06
| Biskuithalle | Bonn, Germany | |
| 1990-08-03
| St. Andrew's Hall | Detroit, MI | |
| 1990-10-29
| Newport Music Hall | Columbus, OH | |
| 1990-11-03
| Federation Hall | Waterloo, ON | |
| 1990-11-27
| Sydney Town Hall | Sydney, Australia | |
| 1990-12-10
| Muse Hall | Osaka, Japan | |
| 1992-04-15
| Page Hall | Albany, NY | |
| 1992-06-24
| Newport Music Hall | Columbus, OH | |
| 1992-07-27b
| 328 Performance Hall | Nashville, TN | |
| 1992-09-30
| 328 Performance Hall | Nashville, TN | |
| 1992-11-15
| Great American Music Hall | San Francisco, CA | |
| 1992-11-16
| Great American Music Hall | San Francisco, CA | |
| 1992-11-17
| Great American Music Hall | San Francisco, CA | |
| 1992-12-03
| Muse Hall | Kyoto, Japan | |
| 1993-09-07
| Newport Music Hall | Columbus, OH | |
| 1994-09-18
| Markthalle | Hamburg, Germany | |
| 1994-11-02
| Rockwell Hall | Buffalo, NY | |
| 1994-11-05
| The Music Hall | Toronto, ON | |
| 1994-12-01
| Memorial Hall | Kansas City, KS | |
| 1995-02-14
| WUST Hall | Washington, DC | |
| 1995-02-15
| WUST Hall | Washington, DC | |
| 1995-03-04b
| 328 Performance Hall | Nashville, TN | |
| 1995-03-08
| Newport Music Hall | Columbus, OH | |
| 1995-05-04
| Shibuya Public Hall | Tokyo, Japan | |
| 1996-05-16
| Newport Music Hall | Columbus, OH | |
| 1996-10-22
| Freedom Hall | Louisville, KY | |
| 1996-12-03
| Newport Music Hall | Columbus, OH | |
| 1996-12-29b
| Water Street Music Hall | Rochester, NY | |
| 1997-04-16
| 328 Performance Hall | Nashville, TN | |
| 1997-11-21
| Water Street Music Hall | Rochester, NY | |
| 1998-04-15
| Seton Hall University | South Orange, NJ | |
| 1998-04-21
| Newport Music Hall | Columbus, OH | |
| 1998-12-13a
| Town Hall (This American Life 1st taping) | New York, NY | |
| 1998-12-13b
| Town Hall (This American Life 2nd taping) | New York, NY | |
| 1999-04-29
| Newport Music Hall | Columbus, OH | |
| 1999-04-30
| Water Street Music Hall | Rochester, NY | |
| 1999-07-16
| LoDo Music Hall (LoDo Music Festival) | Denver, CO | |
| 1999-09-15
| Five Points South Music Hall | Birmingham, AL | |
| 2000-06-06
| Town Hall (Welcome To The Voice) (John Flansburgh show)
| New York, NY | |
| 2001-05-03
| Newport Music Hall | Columbus, OH | |
| 2001-10-24
| Newport Music Hall | Columbus, OH | |
| 2001-10-26
| Water Street Music Hall | Rochester, NY | |
| 2001-11-16
| Town Hall | New York, NY | |
| 2002-04-06
| Newport Music Hall | Columbus, OH | |
| 2003-03-08
| Town Hall (family show) | New York, NY | |
| 2003-04-24
| Royce Hall (McSweeney's show) | Los Angeles, CA | |
| 2003-04-28
| Great American Music Hall (w/ Sapphire Bullets) | San Francisco, CA | |
| 2003-04-29
| Great American Music Hall | San Francisco, CA | |
| 2003-04-30
| Great American Music Hall | San Francisco, CA | |
| 2004-04-17a
| Royce Hall (Kids show) | Los Angeles, CA | |
| 2004-04-17b
| Royce Hall (Evening show) | Los Angeles, CA | |
| 2006-02-11
| Frederick P. Rose Hall (Loser's Lounge Tribute to Burt Bacharach) (John Flansburgh show)
| New York, NY | |
| 2006-05-09
| Newport Music Hall | Columbus, OH | |
| 2007-11-07
| Newport Music Hall | Columbus, OH | |
| 2007-11-09
| Turner Hall | Milwaukee, WI | |
| 2008-03-08
| Hal & Mal's | Jackson, MS | |
| 2008-03-29a
| The Music Hall | Portsmouth, NH | |
| 2008-03-29b
| The Music Hall | Portsmouth, NH | |
| 2008-04-20a
| Town Hall | New York, NY | |
| 2008-04-20b
| Town Hall | New York, NY | |
| 2009-05-09a
| Tarrytown Music Hall (Family show) | Tarrytown, NY | |
| 2009-05-09b
| Tarrytown Music Hall | Tarrytown, NY | |
| 2009-06-12
| Port City Music Hall (John Linnell's 50th birthday) | Portland, ME | |
| 2009-10-04a
| Milstein Hall of Ocean Life (American Museum of Natural History; Family show) | New York, NY | |
| 2009-10-04b
| Milstein Hall of Ocean Life (American Museum of Natural History; Family show) | New York, NY | |
| 2009-10-08
| St. Andrew's Hall | Detroit, MI | |
| 2009-10-28
| Music Hall of Williamsburg | Brooklyn, NY | |
| 2009-11-14a
| Royce Hall (Family Show) | Los Angeles, CA | |
| 2009-11-14b
| Royce Hall (Featuring full performance of Flood) | Los Angeles, CA | |
| 2009-11-15
| Campbell Hall (Family Show) | Santa Barbara, CA | |
| 2009-12-13a
| New York Hall of Science (Family show) | Queens, NY | |
| 2009-12-13b
| New York Hall of Science (Family show) | Queens, NY | |
| 2010-06-26a
| Royal Festival Hall (Family show) | London, UK | |
| 2010-06-26b
| Royal Festival Hall (Rock Show) | London, UK | |
| 2010-09-26a
| Town Hall (Family show) | New York, NY | |
| 2010-09-26b
| Town Hall (Family show) | New York, NY | |
| 2012-01-28a
| Royce Hall (Family show) | Los Angeles, CA | |
| 2012-01-28b
| Royce Hall (30th Anniversary show; Lincoln theme) | Los Angeles, CA | |
| 2012-02-09
| Ponte Vedra Concert Hall | Ponte Vedra Beach, FL | |
| 2012-12-29
| Music Hall of Williamsburg (Opposite halves of Lincoln and Flood) | Brooklyn, NY | |
| 2012-12-30
| Music Hall of Williamsburg (Opposite halves of Lincoln and Flood) | Brooklyn, NY | |
| 2012-12-31
| Music Hall of Williamsburg (New Year's Eve 2013) | Brooklyn, NY | |
| 2013-02-27
| Port City Music Hall | Portland, ME | |
| 2013-03-02
| Newport Music Hall | Columbus, OH | |
| 2013-03-05
| Headliners Music Hall | Louisville, KY | |
| 2013-03-21
| Tarrytown Music Hall | Tarrytown, NY | |
| 2013-05-31
| Turner Hall | Milwaukee, WI | |
| 2013-06-08a
| Graywhale (Instore performance and signing) | Salt Lake City, UT | |
| 2013-10-20
| Vinyl Music Hall | Pensacola, FL | |
| 2013-10-26a
| Royce Hall (Family show) | Los Angeles, CA | |
| 2013-10-26b
| Royce Hall (Featuring full performance of They Might Be Giants (Album)) | Los Angeles, CA | |
| 2013-11-15
| The Queen's Hall | Edinburgh, UK | |
| 2015-01-25
| Music Hall of Williamsburg | Brooklyn, NY | |
| 2015-02-22
| Music Hall of Williamsburg (Featuring full performance of They Might Be Giants (Album)) | Brooklyn, NY | |
| 2015-03-29
| Music Hall of Williamsburg (Featuring full performance of Flood) | Brooklyn, NY | |
| 2015-04-22
| Upstate Concert Hall | Clifton Park, NY | |
| 2015-04-26
| Music Hall of Williamsburg (Glean album release party) | Brooklyn, NY | |
| 2015-05-17
| Newport Music Hall | Columbus, OH | |
| 2015-05-31
| Music Hall of Williamsburg (The Else theme show) | Brooklyn, NY | |
| 2015-06-28a
| Music Hall of Williamsburg (Family show) | Brooklyn, NY | |
| 2015-06-28b
| Music Hall of Williamsburg (Family show) | Brooklyn, NY | |
| 2015-07-26
| Music Hall of Williamsburg (Lincoln album show) | Brooklyn, NY | |
| 2015-09-27
| Music Hall of Williamsburg (Apollo 18 album show) | Brooklyn, NY | |
| 2015-10-25
| Music Hall of Williamsburg ("Horntoberfest" theme) | Brooklyn, NY | |
| 2015-11-19
| Port City Music Hall | Portland, ME | |
| 2015-11-29
| Music Hall of Williamsburg (Special duo set and songs from Dial-A-Song (2015)) | Brooklyn, NY | |
| 2015-12-31
| Music Hall of Williamsburg (Celebrate New Year's Eve ft. horns) | Brooklyn, NY | |
| 2016-01-01
| Music Hall of Williamsburg (Featuring the full performance of Flood) | Brooklyn, NY | |
| 2016-01-02
| Music Hall of Williamsburg | Brooklyn, NY | |
| 2016-03-19
| Turner Hall Ballroom | Milwaukee, WI | |
| 2016-04-03
| Vinyl Music Hall | Pensacola, FL | |
| 2017-12-30
| Music Hall of Williamsburg | Brooklyn, NY | |
| 2017-12-31
| Music Hall of Williamsburg (Mink Car theme show) | Brooklyn, NY | |
| 2018-01-23
| Charleston Music Hall | Charleston, SC | |
| 2018-01-24
| Ponte Vedra Concert Hall | Ponte Vedra Beach, FL | |
| 2018-01-28
| Vinyl Music Hall | Pensacola, FL | |
| 2018-02-02
| White Oak Music Hall | Houston, TX | |
| 2018-02-08
| Newport Music Hall | Columbus, OH | |
| 2018-02-10
| St. Andrew's Hall | Detroit, MI | |
| 2018-03-06
| Hi-Fi Music Hall | Eugene, OR | |
| 2018-04-13
| College Street Music Hall | New Haven, CT | |
| 2018-10-05
| The Queen's Hall | Edinburgh, UK | |
| 2019-11-16
| Town Hall (NPR's Live From Here) | New York, NY | |
| 2020-02-06
| College Street Music Hall (30th Anniversary Flood Show) | New Haven, CT | |
| 2022-09-01
| The Music Hall (Featuring all of Flood) | Portsmouth, NH | |
| 2022-12-31
| College Street Music Hall | New Haven, CT | |
| 2023-03-12
| Charleston Music Hall (Featuring all of Flood) | Charleston, SC | |
| 2023-03-18
| Ponte Vedra Concert Hall (Featuring all of Flood) | Ponte Vedra Beach, FL | |
| 2024-10-05
| City Recital Hall (Featuring all of Flood) | Sydney, Australia | |
| 2024-11-01
| O2 Guildhall Southampton (Featuring all of Flood) | Southampton, UK | |
| 2024-11-08
| Mandela Hall (Featuring all of Flood) | Belfast, UK | |
| 2025-03-01
| Wells Hall at The Parker (Featuring songs from Mink Car) | Fort Lauderdale, FL | |
| 2026-11-13
| The Echo Lounge & Music Hall | Dallas, TX | |
| 2026-11-14
| The Echo Lounge & Music Hall | Dallas, TX | |