| 2025 | Absolution | Locus Awards source ↗ (opens in a new tab) | Finalist · SF Novel | |
| 2024 | Absolution: A Southern Reach Novel | Los Angeles Times Book Prizes source ↗ (opens in a new tab) | Finalist · Science Fiction, Fantasy & Speculative Fiction | |
| 2024 | Absolution | Goodreads Choice Awards source ↗ (opens in a new tab) | Nominee · Science Fiction | |
| 2024 | Absolution | TIME Best Books of the Year source ↗ (opens in a new tab) | Selection · 100 Must-Read | |
| 2024 | Absolution | Booklist Editors' Choice source ↗ (opens in a new tab) | Selection · Adult Books: Genre Fiction: Crime, Romance, SF/Fantasy/Horror | |
| 2024 | Absolution | Esquire Best Books of the Year source ↗ (opens in a new tab) | Selection · Best Books | |
| 2022 | Hummingbird Salamander | Locus Awards source ↗ (opens in a new tab) | Finalist · SF Novel | |
| 2021 | The Big Book of Modern Fantasy | World Fantasy Award (Novel, Collection and Anthology) source ↗ (opens in a new tab) | Winner · Anthology | |
| 2021 | The Big Book of Modern Fantasy | Locus Awards source ↗ (opens in a new tab) | Finalist · Anthology | |
| 2021 | A Peculiar Peril | Locus Awards source ↗ (opens in a new tab) | Finalist · Young Adult Book | |
| 2021 | Hummingbird Salamander | Shirley Jackson Awards source ↗ (opens in a new tab) | Nominee · Novel | |
| 2021 | Hummingbird Salamander | New York Public Library Best Books source ↗ (opens in a new tab) | Selection · Best Books for Adults | |
| 2021 | Hummingbird Salamander: A Novel | NPR Books We Love source ↗ (opens in a new tab) | Selection · Books We Love | |
| 2021 | Hummingbird Salamander | Kirkus Best Books of the Year source ↗ (opens in a new tab) | Selection · Fiction | |
| 2021 | Hummingbird Salamander | Washington Post Best Books of the Year source ↗ (opens in a new tab) | Selection · Notable Fiction | |
| 2020 | The Big Book of Classic Fantasy | Locus Awards source ↗ (opens in a new tab) | Finalist · Anthology | |
| 2020 | Dead Astronauts | Locus Awards source ↗ (opens in a new tab) | Finalist · Fantasy Novel | |
| 2020 | The Big Book of Classic Fantasy | World Fantasy Award (Novel, Collection and Anthology) source ↗ (opens in a new tab) | Nominee · Anthology | |
| 2020 | A Peculiar Peril | Kirkus Best Books of the Year source ↗ (opens in a new tab) | Selection · Teen | |
| 2019 | Borne | Dublin Literary Award source ↗ (opens in a new tab) | Longlist · Fiction | |
| 2019 | Dead Astronauts | Esquire Best Books of the Year source ↗ (opens in a new tab) | Selection · Best Books | |
| 2018 | Borne | John W. Campbell Memorial Award for Best Science Fiction Novel source ↗ (opens in a new tab) | Finalist · Best Science Fiction Novel | |
| 2018 | Borne | Locus Awards source ↗ (opens in a new tab) | Finalist · SF Novel | |
| 2018 | Borne | Arthur C. Clarke Award source ↗ (opens in a new tab) | Shortlist · Novel | |
| 2017 | The Big Book of Science Fiction | Locus Awards source ↗ (opens in a new tab) | Winner · Anthology | |
| 2017 | Borne | Goodreads Choice Awards source ↗ (opens in a new tab) | Nominee · Science Fiction | |
| 2017 | Borne | Chicago Public Library Best of the Best source ↗ (opens in a new tab) | Selection · Best Books | |
| 2017 | Borne | The Boston Globe Best Books of the Year source ↗ (opens in a new tab) | Selection · Fiction | |
| 2017 | Borne | Kirkus Best Books of the Year source ↗ (opens in a new tab) | Selection · Fiction | |
| 2017 | Borne | Los Angeles Times Best Books of the Year source ↗ (opens in a new tab) | Selection · Fiction | |
| 2017 | Borne | Publishers Weekly Best Books source ↗ (opens in a new tab) | Selection · Fiction | |
| 2017 | Borne | Paste Best Books of the Year source ↗ (opens in a new tab) | Selection · Fiction | |
| 2017 | Borne | Financial Times Best Books of the Year source ↗ (opens in a new tab) | Selection · Science Fiction | |
| 2017 | Borne | The Guardian Best Books of the Year source ↗ (opens in a new tab) | Selection · Science fiction and fantasy | |
| 2015 | Annihilation | Nebula Award (Novel, Novella and Andre Norton) source ↗ (opens in a new tab) | Winner · Novel | |
| 2015 | The Time Traveler's Almanac | Locus Awards source ↗ (opens in a new tab) | Finalist · Anthology | |
| 2015 | Area X: The Southern Reach Trilogy | John W. Campbell Memorial Award for Best Science Fiction Novel source ↗ (opens in a new tab) | Finalist · Best Science Fiction Novel | |
| 2015 | Annihilation/Authority/Acceptance | Locus Awards source ↗ (opens in a new tab) | Finalist · SF Novel | |
| 2015 | Area X: The Southern Reach Trilogy | World Fantasy Award (Novel, Collection and Anthology) source ↗ (opens in a new tab) | Nominee · Novel | |
| 2015 | Sisters of the Revolution | Kirkus Best Books of the Year source ↗ (opens in a new tab) | Selection · Fiction | |
| 2014 | Annihilation | Shirley Jackson Awards source ↗ (opens in a new tab) | Winner · Novel | |
| 2014 | Wonderbook: The Illustrated Guide to Creating Imaginative Fiction | Hugo Award (book categories) source ↗ (opens in a new tab) | Finalist · Related Work | |
| 2014 | Annihilation | Goodreads Choice Awards source ↗ (opens in a new tab) | Nominee · Science Fiction | |
| 2014 | Annihilation | Chicago Public Library Best of the Best source ↗ (opens in a new tab) | Selection · Best Books: More Fiction | |
| 2014 | Area X: The Southern Reach Trilogy: Annihilation; Authority; Acceptance | NPR Books We Love source ↗ (opens in a new tab) | Selection · Books We Love | |
| 2014 | Annihilation | Kirkus Best Books of the Year source ↗ (opens in a new tab) | Selection · Fiction | |
| 2014 | Area X | The Globe and Mail Globe 100 source ↗ (opens in a new tab) | Selection · Fiction | |
| 2014 | The Southern Reach Trilogy | Entertainment Weekly Best Books source ↗ (opens in a new tab) | Selection · Fiction | |
| 2014 | Area X (Annihilation, Authority Acceptance) | Library Journal Best Books source ↗ (opens in a new tab) | Selection · SF/Fantasy | |
| 2014 | Annihilation/Authority/Acceptance | Financial Times Best Books of the Year source ↗ (opens in a new tab) | Selection · Science Fiction | |
| 2013 | Wonderbook | BSFA Awards source ↗ (opens in a new tab) | Winner · Best Non-Fiction | |
| 2013 | Wonderbook | The Guardian Best Books of the Year source ↗ (opens in a new tab) | Selection · Science fiction and fantasy | |
| 2012 | The Weird | World Fantasy Award (Novel, Collection and Anthology) source ↗ (opens in a new tab) | Winner · Anthology | |
| 2012 | The Steampunk Bible: An Illustrated Guide to the World of Imaginary Airships, Corsets and Goggles, Mad Scientists, and Strange Literature | Hugo Award (book categories) source ↗ (opens in a new tab) | Finalist · Related Work | |
| 2012 | The Thackery T. Lambshead Cabinet of Curiosities | World Fantasy Award (Novel, Collection and Anthology) source ↗ (opens in a new tab) | Nominee · Anthology | |
| 2012 | The Weird | Publishers Weekly Best Books source ↗ (opens in a new tab) | Selection · SF/Fantasy/Horror | |
| 2011 | The Thackery T. Lambshead Cabinet of Curiosities | Shirley Jackson Awards source ↗ (opens in a new tab) | Finalist · Edited Anthology | |
| 2011 | The Third Bear | World Fantasy Award (Novel, Collection and Anthology) source ↗ (opens in a new tab) | Nominee · Collection | |
| 2010 | Finch | Locus Awards source ↗ (opens in a new tab) | Finalist · Fantasy Novel | |
| 2010 | The Third Bear | Shirley Jackson Awards source ↗ (opens in a new tab) | Finalist · Single-Author Collection | |
| 2010 | Finch | Nebula Award (Novel, Novella and Andre Norton) source ↗ (opens in a new tab) | Nominee · Novel | |
| 2010 | Finch | World Fantasy Award (Novel, Collection and Anthology) source ↗ (opens in a new tab) | Nominee · Novel | |
| 2010 | Finch | Financial Times Best Books of the Year source ↗ (opens in a new tab) | Selection · Science Fiction | |
| 2009 | Steampunk | World Fantasy Award (Novel, Collection and Anthology) source ↗ (opens in a new tab) | Nominee · Anthology | |
| 2009 | Finch | Washington Post Best Books of the Year source ↗ (opens in a new tab) | Selection · Notable Fiction | |
| 2008 | Fast Ships, Black Sails | Shirley Jackson Awards source ↗ (opens in a new tab) | Finalist · Edited Anthology | |