Doctrine of Labyrinths series

• —— (2005). Mélusine (1st ed.). New York: Ace Books. pp. 1–432. ISBN 978-0441012862.
• —— (2006). The Virtu (hardcover ed.). Ace Books. pp. 1–439. ISBN 978-0441014040.
• —— (2007). The Mirador (hardcover ed.). Ace Books. pp. 1–426. ISBN 978-0441015009.
• —— (2009). Corambis (hardcover ed.). Ace Books. pp. 1–421. ISBN 978-0441015962.

Iskryne series

• ——; Bear, Elizabeth (2007). A Companion to Wolves (hardcover ed.). Tor Books. pp. 1–302. ISBN 978-0765318169.
• ——; Bear, Elizabeth (2011). The Tempering of Men (hardcover ed.). Tor Books. pp. 1–304. ISBN 978-0765324702.
• ——; Bear, Elizabeth (2015). An Apprentice to Elves (hardcover ed.). Tor Books. pp. 1–336. ISBN 978-0765324719.

Standalone novels

Published as Katherine Addison

• —— (2014). The Goblin Emperor (hardcover ed.). Tor Books. pp. 1–446. ISBN 978-0765326997.
• —— (2020). The Angel of the Crows (hardcover ed.). Tor Books. pp. 1–448. ISBN 978-0765387394.

Cemeteries of Amalo series

Published as Katherine Addison, set in the same world as The Goblin Emperor

• —— (2021). The Witness for the Dead (hardcover ed.). Tor Books. pp. 1–240. ISBN 978-0765387424.
• —— (2022). The Grief of Stones (hardcover ed.). Tor Books. pp. 1–249. ISBN 978-1250813893.

Kyle Murchison Booth

• "The Wall of Clouds" (Alchemy Magazine 1, December 2003)
• "The Inheritance of Barnabas Wilcox" (Lovecraft's Weird Mysteries 7, May 2004)
• "The Venebretti Necklace" (Alchemy Magazine 2, September 2004)
• "Bringing Helena Back" (All Hallows: The Journal of the Ghost Story Society 35, February 2004)
• "The Green Glass Paperweight" (Tales of the Unanticipated 25, August 2004)
• "Wait for Me" (Naked Snake Online, September 2004)
• "Elegy for a Demon Lover" (Tales of the Unanticipated 26, October 2005)
• "Drowning Palmer" (All Hallows: The Journal of the Ghost Story Society 41, February 2006)
• "The Bone Key" (SAY... What's the Combination?, May 2007)
• "Listening to Bone" (The Bone Key, Prime Books, 2007)
• "The World Without Sleep" (Postscripts, Spring 2008)
• "The Yellow Dressing Gown" (Weird Tales, March 2008)
• "The Replacement" (The Willows, September 2008)
• "White Charles" (Clarkesworld Magazine, September 2009)
• "Unnatural Creatures" (Unnatural Creatures, self-published, 2011)^[12]
• "To Die for Moonlight" (Apex Magazine, July 2013)
• "The Testimony of Dragon's Teeth" (Uncanny Magazine, March 2018)
• "The Haunting of Dr. Claudius Winterson" (Uncanny Magazine, January 2022)
• "A Theory of Haunting" (SOLARIS, 2023)

Boojum

• "Boojum" (with Elizabeth Bear) (Fast Ships, Black Sails, eds. Jeff and Ann VanderMeer, Night Shade Books, 2008)
• "Mongoose" (with Elizabeth Bear) (2009)
• "The Wreck of the Charles Dexter Ward" (with Elizabeth Bear) (2012)

Shadow Unit Episodes^[13]

• 1.03 "Dexterity"
• 1.05 "Ballistic" (with Emma Bull, Elizabeth Bear, and Amanda Downum)
• 3.00 "On Faith"
• 4.03 "Hope Is Stronger Than Love"

Other short fiction

• "Three Letters from the Queen of Elflands" (Lady Churchill's Rosebud Wristlet #11, November 2002)
• "Queen of Swords Archived 2007-11-21 at the Wayback Machine" (Alienskin Magazine #2.4, November 2003)
• "Sidhe Tigers" (Lady Churchill's Rosebud Wristlet #13, November 2003)
• "Straw Archived 2007-11-03 at the Wayback Machine" (Strange Horizons #28, June 2004)
• "The Half-Sister" (Lady Churchill's Rosebud Wristlet #15, January 2005)
• "The Séance at Chisholm End" (Alchemy Magazine #3, January 2006)
• "A Gift of Wings" The Queen in Winter Ace Books, 2006
• "The Ile of Dogges" (with Elizabeth Bear) (Aeon #7, May 2006)
• "A Night in Electric Squidland" (Lone Star Stories #15, June 2006)
• "Katabasis: Seraphic Trains" (Tales of the Unanticipated #27, July 2006)
• "National Geographic On Assignment: Mermaids of the Old West" (Fictitious Force #2, July 2006)
• "Draco campestris Archived 2007-10-24 at the Wayback Machine" (Strange Horizons, August 7, 2006)
• "Letter from a Teddy Bear on Veterans' Day" (Ideomancer 5.3, September 2006)
• "A Light in Troy" (Clarkesworld Magazine #1, October 2006)
• "Amante Dorée" (Paradox Magazine #10, Winter 2006/07)
• "The Watcher in the Corners" (author's blog, Notes from the Labyrinth, April 23, 2007)
• "Somewhere Beneath Those Waves Was Her Home" (Fantasy Magazine, July 2007)
• "Under the Beansidhe's Pillow" (Lone Star Stories #22, August 1, 2007)
• "Festival Lives, View 3: All God's Chillun Got Wings" (2008)
• "Darkness, as a Bride" (Cemetery Dance #58, February 2008)
• "Fiddleback Ferns" (Flytrap #9, June 2008)
• "Night Train: Heading West" (poem) (The Year's Best Fantasy & Horror: Nineteenth Annual Collection, August 2008)
• "Last Drink Bird Head" (2009)
• "After the Dragon" (Fantasy Magazine, January 2010)
• "Ashes, Ashes" (All Hallows: The Journal of the Ghost Story Society, 2011)
• "No Man's Land" (Fictitious Force, 2011)
• "The Devil in Gaylord's Creek" (2011)
• "Why Do You Linger?" (2011)
• "Absent from Felicity" (Somewhere Beneath Those Waves, 2011)
• "Impostors" (Somewhere Beneath Those Waves, 2011)
• "Blue Lace Agate" (2012)
• "Coyote Gets His Own Back" (2012)
• "The Half-Life of Angels" (2015)
• "Learning to See Dragons" (2017)
• "National Geographic on Assignment: The Unicorn Enclosure" (2017)
• "The Oracle of Abbey Road (Blackbird Singing in the Dead of Night)" (2018)