| 1992 | | Live at Maxwell's, Hoboken |
| 1992 | | Strings |
| 1993 | | Velvet Days |
| 1994 | | Hips and Makers |
| 1994 | | Your Ghost |
| 1995 | | The Holy Single |
| 1998 | | Like You |
| 1998 | | Murder, Misery and Then Goodnight |
| 1998 | | Strange Angels |
| 1999 | | Echo |
| 1999 | | Sky Motel |
| 2000 | | A Cleaner Light |
| 2001 | | Live at Noe Valley Ministry (1) |
| 2001 | | Live at Noe Valley Ministry (2) |
| 2001 | | Sunny Border Blue |
| 2003 | | The Grotto |
| 2006 | | Mississippi Candlelight (June 6, 2006) |
| 2007 | | Learn To Sing Like A Star |
| 2007 | | Learn To Sing Like A Star (bonus) |
| 2008 | | 10-4 All (1) |
| 2008 | | 10-4 All (2) |
| 2008 | | 10-4 All (3) |
| 2008 | | 10-4 All (4) |
| 2008 | | 10-4 All (5) |
| 2010 | | Cats and Mice |
| 2013 | | Crooked |
| 2013 | | Crooked Beginnings |
| 2013 | | Crooked Remainders |
| 2016 | | Wyatt at the Coyote Palace (1) |
| 2016 | | Wyatt at the Coyote Palace (2) |
| 2018 | | Possible Dust Clouds |
| 2023 | | Clear Pond Road |