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Novels
- A Choice of Destinies (1986)
- A Death at the Dionysus Club (2014) with Amy Griswold
- Allegiance (2011) with Amy Griswold
- Burning Bright (1993)
- Death by Silver (2013) with Amy Griswold
- Dreaming Metal (1997)
- Dreamships (1992)
- Fairs' Point (2014)
- Finders (2018)
- Five Planes (2018) with Don Sakers
- Five-Twelfths of Heaven (1985)
- Homecoming (2010) with Jo Graham
- Inheritors (2013) with Jo Graham and Amy Griswold
- Lost Things (2012) with Jo Graham
- Mighty Good Road (1990)
- Moebius Squared (2012) with Jo Graham
- Night Sky Mine (1996)
- Oath Bound (2016) with Jo Graham
- Ouroboros (2013)
- Point of Dreams (2001) with Lisa A. Barnett
- Point of Hopes (1995) with Lisa A. Barnett
- Point of Sighs (2018)
- Pride of the Genii (2018)
- Proud Helios (1995)
- Secrets (2012) with Jo Graham
- Shadow Man (1995)
- Silence in Solitude (1986)
- Silver Bullet (2014) with Jo Graham
- Steel Blues (2013) with Jo Graham
- Storm Warning (2020)
- The Armor of Light (1988) with Lisa A. Barnett
- The Empress of Earth (1987)
- The Fire in Fortitude (2022)
- The Game Beyond (1984)
- The Garden (1997)
- The Jazz (2000)
- The Kindly Ones (1987)
- The Rule of Five: Year One (2017) with Don Sakers
- The Rule of Five: Year Two (2018) with Don Sakers
- The Shapes of Their Hearts (1998)
- Third Path (2020) with Jo Graham
- Trouble and Her Friends (1994)
- Water Horse (2021)
- Wind Raker (2014) with Jo Graham
- The Order of the Air Omnibus (2015) [O/1-3] with Jo Graham
- The Roads of Heaven (1988) [O/1,2,3]
- L'astronave Che Sapeva (Complete Novel) [Italian] (1995)
- The Rule of Five Quarterly - 2016 (2016) with Don Sakers
- The Rule of Five Quarterly - 2017 (2017) with Don Sakers
- The Rule of Five Quarterly - 2018 (2018) with Don Sakers
- Heiresses of Russ 2014: The Year's Best Lesbian Speculative Fiction (2014) with Steve Berman
- Jaelle Her Book: A Memorial (2013) with Don Sakers
- Lost Queen (2020)
- Point of Knives: A Novella of Astreiant (2012)
- The Wild Blue (2020)
- Bank Job Blues (2015)
- Bonfire Night (2013)
- Close Quarters (2020)
- excerpt from Trouble and Her Friends (2007)
- Finders (2013)
- Firstborn, Lastborn (2016)
- Five-Twelths of Heaven (excerpt) (1984)
- Lost Queen (2020)
- Mercy Mission (2015)
- Mr. Seeley (2007)
- One Horse Town (2008)
- Point of Dreams (excerpt) (2006) with Lisa A. Barnett
- Point of Knives (2012)
- The Arabella (2013)
- The Carmen Miranda Gambit (1990) with Lisa A. Barnett
- The Garden (extract) (1997)
- The King Who Was Summoned to Damascus (1988)
- The Merchant (1989)
- The Rocky Side of the Sky (2008)
- The Sweet Not-Yet (2003)
- The Sweet Not-Yet (excerpt) (2006)
- The Wild Blue (2020)
- The Wollart Nymphs (2015)
- Wind Raker (excerpt) (2015) with Jo Graham
- Worshipper (2020)
- A Last Farewell (2013)
- About the Authors (Arabesques) (1988) with M. J. Engh and William R. Forstchen and Esther M. Friesner and Tanith Lee and Sandra Miesel and Larry Niven and Andre Norton and Elizabeth Ann Scarborough and Susan Shwartz and Nancy Springer and Judith Tarr and Harry Turtledove and Gene Wolfe and Jane Yolen
- About the Authors (Arabesques: More Tales of the Arabian Nights) (1988) with uncredited
- Falling into Science Fiction (2001)
- Humming the Sets: World Building That Supports the Story (2014)
- Introduction (Jaelle Her Book) (2013) with Don Sakers
- Letter (Locus #326) (1988)
- Letter (NYRSF, November 1993) (1993)
- Lisa Barnett (2006)
- Read This (NYRSF, August 1993) (1993)
- Entrevue: Melissa Scott (1990) by Luc Pomerleau
- Melissa Scott: Of Masks & Mataphors (1999) by uncredited