| Through | Interzone Jul/Aug 1989 |
| Well-Loved | Interzone March/April 1990 Pulphouse Sept/Oct 1992 Interzone 5th Anthology |
| 1/72nd Scale | Weird Tales Fall 1990 Best New Horror 2 Nebula Awards 26 Giant Book of Best New Horror (ed. Jones 1993) Best of Weird Tales |
| Past Magic | Interzone Sep-90 Best New SF 8 Clones (ed. Dann & Dozois) |
| Living in Sin | Amazing Jan-91 |
| Green | Asimov’s Mid Dec 1990 Best Fantasy and Horror 4 |
| Marnie | Asimov’s May-91 Best New SF 9 |
| The Giving Mouth | Asimov’s Mar-91 Steampunk, ed. Jeff & Ann VanderMeer, Tachyon, 2008 |
| The Family Football | Interzone Nov-91 Best of Interzone Weird Tales Spring 1999 Stories of Hope and Wonder, ed Ian Whates NewCon Press 2020 |
| The Perfect Stranger | F&SF Dec-91 |
| Snodgrass | In Dreams (Gollancz ed McAuley/Newman) Best New SF 10 Best New Horror 4 Giant Book of Terror |
| Grownups | Asimov’s Jun-92 Best New SF 10 Isaac Asimov’s Skin Deep Flying Cups and Saucers |
| Returning | Interzone Oct-92 Pirate Writings Spring 1995 |
| Papa | Asimov’s Oct-93 Best New SF 11 Isaac Asimov’s Father’s Day |
| The Dead Orchards | Weird Tales Spring 1994 Best New Horror 6 James Goddard, 2006 (a limited edition of 30 copies) |
| Sealight | F&SF May-94 |
| Tirkiluk | F&SF Feb-95 Best New Horror 7 ed Jones |
| Ellen O’Hara | Asimov’s Feb-95 |
| The Noonday Pool | F&SF May-95 |
| Starship Day | Asimov’s Jul-95 Best New SF 13 |
| Verglas | F&SF Oct/Nov-96 |
| Nina-With-The-Sky-In-Her-Hair | F&SF Dec-95 |
| Swimmers Beneath the Skin | Asimov’s Oct/Nov-96 |
| The Roads | Asimov’s Apr-97 James Goddard, 2005 (limited edition of 30 copies) |
| The Golden Keeper | Asimov’s Oct/Nov-97 Eternal Lovecraft ed Turner Isaac Asimov’s Halloween |
| Nevermore | Dying For It ed Dozois Best New SF 15 Asimov’s Jul-98 Supermen ed Dozois Beyond Flesh ed Dozois |
| Home Time | F&SF Feb-98 |
| The Summer Isles | (winner of the World Fantasy Award) Asimov’s Oct/Nov-98 Best New SF 16 |
| The Chop Girl | (winner of the World Fantasy Award) Asimov’s Dec-99 Best Fantasy and Horror 13 ed. Datlow |
| Two Sleepers | Century #6 2000 |
| Chitty Bang Bang | Asimov’s Jun 2000 |
| New Light on The Drake Equation | e-zine SciFiction May 02 2001 Best New SF 19 The Best of the Best, Volume 2: Twenty Years of the Best Short Science Fiction Novels, ed. Dozois |
| Isabel of the Fall | Interzone #169 2001 Best New SF 19 |
| Breathmoss | Asimov’s, May 2002 Science Fiction Best of 2002 Best New SF 20 Best of the Best ed. Dozois The Mammoth Book of the Best of the Best New SF ed. Dozois |
| Taking Good Care of Myself | Nature Magazine, 4 May 2006, Vol 441, issue 7089 Year’s Best SF 12 edited by Hartwell and Cramer, Eos, 2007 Futures From Nature : 100 Speculative Fictions, ed. Henry Gee |
| The Bonny Boy | Original story in collection Past Magic, PS Publishing, 2006 |
| The Master Miller’s Tale | The Magazine of Fantasy & Science Fiction, May 2007 Fantasy: The Best of the Year, 2008 Edition, ed. Rich Horton |
| On the Sighting of Other Islands | Celebration ed. Ian Whates (Newcon Press, March 2008) |
| The Hob Carpet | Asimov’s, June 2008 |
| Elementals | Extraordinary Engines, ed. Nick Gevers (Solaris, October 2008) |
| The English Mutiny | Asimov’s October/November 2008 The Mammoth Book of Alternate Histories, ed. Ian Watson & Ian Whates, Robinson, 2010 |
| The Camping Wainwrights | Postscripts, Winter 2008 The Years’s Best Horror, 2009 edited by Stephen Jones |
| Topping Off the Spire | In Topping Off the Spire , 2008 |
| Second Journey of the Magus | In Subterranean Online, Winter 2010 |
| Re-Crossing the Styx | F & SF, July/August 2010 |
| The Crane Method | Subterranean Magazine, Spring 2011 |
| Hector Douglas Makes a Sale | Hector Douglas Makes a Sale, PS Publishing, 2011 (promotional booklet) |
| The Cold Step Beyond | Asimov’s, June 2011 |
| Tumbling Nancy | Subterranean, Summer 2012 |
| The Réparateur of Strasbourg | Chapbook, PS Publishing, 2013 |
| The Discovered Country | Asimov’s, September 2013 The Year’s Best SF and Fantasy, edited by Rich Horton The Year’s Best SF 35th Edition, edited by Gardner Dozois |
| Entangled | Asimov’s, December 2013 The Best Science Fiction and Fantasy of the Year, edited by Jonathan Strathan The Year’s Best SF 35th Edition, edited by Gardner Dozois |
| The Traveller and the Book | Subterranean, Spring 2014 |
| The Howl (with Martin Sketchley) | Solaris Rising 3, edited by Ian Whates |
| Frost on Glass | from Frost on Glass (title novella in a short story collection), Ian R MacLeod |
| Letter to Will | Six Stories, West Midlands Writers’ Network, 2014 |
| The Visitor from Taured | Asimov’s, September 2016 The Best Science fiction and Fantasy of the Year, edited by Jonathan Strahan The Best Science Fiction of the Year, edited by Neil Clarke The Year’s Best Science Fiction 34th Annual Collection, edited by Gardner Dozois |
| The Wisdom of the Group | Asimov’s, March/April 2017 |
| The Fall of the House of Kepler | Extrasolar, edited by Nick Gevers, PS Publishing 2017 |
| Ourobrous | 2001: An Odyssey in Words, edited byTom Hunter & Ian Whates, Newcon Press 2018 |
| Ephemera | Asimov’s, July/August 2018 |
| The Memory Artist | First published in Chinese by Future Affairs Administration. Republished in English, Asimov’s May/June 2019 |
| Selkie | First published in Alternate Peace, edited by Joshua Palmatier and Steven H Silver, ZNB Books, 2019. |
| The Mrs Innocents | Asimov’s May/June 2020 |
| Lamagica | First published in Subterranean: Tales of Dark Fantasy 3, edited by William Schafer, Subterranean Press 2020 |
| Sin Eater | First published in Made to Order, edited by Jonathan Strahan, Solaris Books, 2020 |
