In the years after the split, Shepherd participated in some of Josh Homme's Desert Sessions collaboration (Volumes 1 & 2), on which he played bass and guitar, and played bass with Mark Lanegan (in the 1999 album I'll Take Care of You and 2001's Field Songs, where he even wrote co-wrote the song "Blues For D"), and Tony Iommi (2000's Iommi). In 2005, Shepherd formed the shortly lived band Unkmongoni and released the second Hater album, The 2nd.Prince, David. "Soundgarden Reunion Planned for 2010". billboard.com. January 1, 2010.
