38 titles- All-Star Zeppelin Adventure Stories (Wilsonville, Oregon: Wheatland Press/All-Star Stories, 2004) with David Moles
- Almost All the Way Home from the Stars (Scotts Valley, California: CreateSpace, 2013) with Ruth Nestvold
- American Sorrows (Wilsonville, Oregon: Wheatland Press, 2004)
- The Baby Killers (Hornsea, East Yorkshire: PS Publishing, 2010)
- Death of a Starship (Austin, Texas: Monkey Brain Books, 2009)
- Dogs in the Moonlight (Holicong, Pennsylvania: Wildside Press/Prime Books, 2004)
- Endurance (New York: Tor, 2011)
- Escapement (New York: Tor, 2008)
- The Exquisite Corpuscle (Bonney Lake, Washington: Fairwood Press, 2008) with Frank Wu
- Footprints (Overland Park, Kansas: Hadley Rille Books, 2009) with Eric T Reynolds
- Green (New York: Tor, 2009)
- Green Grow the Rushes-Oh (Auburn, Washington: Fairwood Press, 2003)
- Greetings from Lake Wu (Wilsonville, Oregon: Wheatland Press, 2003)
- Greetings from Lake Wu (San Pedro, California: Traife Buffet, 2006)
- Kalimpura (New York: Tor, 2013)
- Last Plane to Heaven: The Final Collection (New York: Tor, 2014)
- Lost in the Time of Metal and Flesh (Rockville, Maryland: Prime Books, 2013)
- Madness of Flowers: A Novel of the City Imperishable (San Francisco, California: Night Shade Books, 2009)
- Mainspring (New York: Tor, 2007)
- METAtropolis: The Wings We Dare Aspire (Monument, Colorado: WordFire Press, 2014) with Ken Scholes
- Other Earths (New York: DAW Books, 2009) with Nick Gevers
- Our Lady of the Islands (Seattle, Washington: Per Aspera Press, 2014) with Shannon Page
- Pinion (New York: Tor, 2010)
- Polyphony 1 (Wilsonville, Oregon: Wheatland Press, 2002) with Deborah Layne
- Polyphony 2 (Wilsonville, Oregon: Wheatland Press, 2003) with Deborah Layne
- Polyphony 3 (Wilsonville, Oregon: Wheatland Press, 2003) with Deborah Layne
- Polyphony 4 (Wilsonville, Oregon: Wheatland Press, 2004) with Deborah Layne
- Polyphony 5 (Wilsonville, Oregon: Wheatland Press, 2005) with Deborah Layne
- Polyphony 6 (Wilsonville, Oregon: Wheatland Press, 2006) with Deborah Layne
- The River Knows its Own (Wilsonville, Oregon: Wheatland Press, 2007)
- Rocket Science (Auburn, Washington: Fairwood Press, 2005)
- The Sky That Wraps: Collected Short Fiction (Burton, Michigan: Subterranean Press, 2010)
- The Specific Gravity of Grief (Bonney Lake, Washington: Fairwood Press, 2010)
- Spicy Slipstream Stories (Maple Shade, New Jersey: Lethe Press, 2008) with Nick Mamatas
- The Starship Mechanic (New York: Tor, 2010) with Ken Scholes
- TEL: Stories (Wilsonville, Oregon: Wheatland Press, 2005)
- Trial of Flowers: A Novel of the City Imperishable (San Francisco, California: Night Shade Books, 2006)
- Two Stories (New York: Tor.com, 2011) with Ken Scholes