The Jay Farrar discography covers recordings with Uncle Tupelo, Son Volt, Gob Iron, and as solo artist.
| align=left | Year | align=left | Artist | align=left | Title | align=left | Label | align=left | Comments |
|---|---|---|---|---|---|---|---|---|---|
| 1990 | Uncle Tupelo | No Depression | Rockville | ||||||
| 1991 | Uncle Tupelo | Still Feel Gone | Rockville | ||||||
| 1992 | Uncle Tupelo | March 16-20, 1992 | Rockville | ||||||
| 1993 | Uncle Tupelo | Anodyne | Sire | ||||||
| 1995 | Son Volt | Trace | Warner Bros. | ||||||
| 1997 | Son Volt | Straightaways | Warner Bros. | ||||||
| 1998 | Son Volt | Wide Swing Tremolo | Warner Bros. | ||||||
| 2001 | Jay Farrar | Sebastopol | Artemis | ||||||
| 2002 | Jay Farrar | ThirdShiftGrottoSlack (EP) | Outtakes from the Sebastopol sessions | ||||||
| 2002 | , | Retrospective compilation including two previously unreleased tracks | |||||||
| 2003 | Jay Farrar | The Slaughter Rule | Bloodshot Records | film soundtrack | |||||
| 2003 | Jay Farrar | Terroir Blues | Act/Resist | ||||||
| 2004 | Jay Farrar | Stone, Steel & Bright Lights | Transmit Sound | Live album, includes bonus DVD Live at Slim's | |||||
| 2004 | Jay Farrar | Live in Seattle | Transmit Sound | Live album | |||||
| 2005 | Son Volt | Retrospective compilation including five previously unreleased tracks | |||||||
| 2005 | Son Volt | Okemah and the Melody of Riot | Transmit Sound/Legacy | ||||||
| 2006 | Gob Iron | Death Songs for the Living | Transmit Sound/Legacy | ||||||
| 2007 | Son Volt | The Search | Transmit Sound/Legacy | ||||||
| 2009 | Son Volt | American Central Dust | Rounder/UMGD | ||||||
| 2009 | One Fast Move or I'm Gone | Atlantic/F-Stop | Collaborative album using the lyrics of Jack Kerouac | ||||||
| 2011 | New Multitudes | Rounder | Collaborative album using the lyrics of Woody Guthrie | ||||||
| 2013 | Son Volt | Honky Tonk | Rounder | ||||||
| 2017 | Son Volt | Notes of Blue | Transmit Sound/Thirty Tigers | ||||||
| 2019 | Son Volt | Union | Transmit Sound | ||||||
| 2021 | Son Volt | Electro Melodier | Transmit Sound |