In the age of Karl Ove Knausgaard (published here by Archipelago Books) and Elena Ferrante (Europa Editions), indies rule. Here's a list of NYTBR "editors' choice" picks since January.
  1. I'm including university presses, but not publishers like Grove or Norton, which are technically independent but too big to qualify as "small presses." Unsurprisingly, there's lots of translation and quirk here, since indies are less constrained by commercial demands.
  2. Graywolf
    1) "Citizen: An American Lyric," by Claudia Rankine. 2) "See You in Paradise: Stories," by J. Robert Lennon.
  3. New York Review
    "The Door," by Magda Szabo. Translated by Len Rix.
  4. Other Press
    "Happy Are the Happy," by Yasmina Reza. Translated by John Cullen.
  5. Overlook
    "Head of State: A Political Entertainment," by Andrew Marr.
  6. Europa Editions
    "The Hollow Land," by Jane Gardam.
  7. Open Letter
    "Lies, First Person," by Gail Hareven. Translated by Dalya Bilu.
  8. New Directions
    "The Musical Brain: And Other Stories," by César Aira. Translated by Chris Andrews.
  9. City Lights
    "The Penguin's Song," by Hassan Daoud. Translated by Marilyn Booth.
  10. Tyrant
    "Preparation for the Next Life," by Atticus Lish.
  11. University of Wisconsin
    "Selected Epigrams," by Martial. Translated by Susan McLean.
  12. Yale University
    1) "Suspended Sentences: Three Novellas," by Patrick Modiano. Translated by Mark Polizzotti. 2) "Ben-Gurion: Father of Modern Israel," by Anita Shapira. Translated by Anthony Berris. 3) "Mourning Lincoln," by Martha Hodes. 4) "A Voice Still Heard: Selected Essays of Irving Howe," edited by Nina Howe.
  13. University of Iowa
    "When Mystical Creatures Attack!," by Kathleen Founds.
  14. Tin House
    1) "The Wilds: Stories," by Julia Elliott. 2) "Loitering: New and Collected Essays," by Charles D'Ambrosio.
  15. Aperture
    "Chewing Gum and Chocolate," photographs by Shomei Tomatsu. Edited by Leo Rubinfien and John Junkerman.
  16. Counterpoint
    "A Country Called Childhood: Children and the Exuberant World," by Jay Griffiths.
  17. Trinity University
    "The Encyclopedia of Trouble and Spaciousness," by Rebecca Solnit.
  18. University of Chicago
    "The Getaway Car: A Donald Westlake Nonfiction Miscellany," edited by Levi Stahl.
  19. Belknap/Harvard University
    "The Image of the Black in Western Art: Volume V: The 20th Century, Parts 1 and 2," edited by David Bindman and Henry Louis Gates Jr.
  20. Cambridge University
    "The Letters of Samuel Beckett, Volume III: 1957-1965," edited by George Craig, Martha Dow Fehsenfeld, Dan Gunn and Lois More Overbeck.
  21. A Cappella/Chicago Review
    "Ralph Peer and the Making of Popular Roots Music," by Barry Mazor
  22. Pegasus
    "Tolstoy's False Disciple: The Untold Story of Leo Tolstoy and Vladimir Chertkov," by Alexandra Popoff.
  23. Coffee House Press
    Suggested by @ChrisK
  24. No Starch Press
    Really beautiful and unique technical books
    Suggested by @ChrisK