Standalone novels •
The Creek (2003) •
Penny from Heaven (2007) -
Newbery Honor •
The Lion of Mars (2021) •
The Fourteenth Goldfish series •
The Fourteenth Goldfish (2014) •
The Third Mushroom (2018)
Sunny series Graphic novels, illustrated by
Matthew Holm and colored by
Lark Pien •
Sunny Side Up (2015) •
Swing it, Sunny (2017) •
Sunny Rolls the Dice (2019) •
Sunny Makes a Splash (2021) •
Sunny Makes Her Case (2024)
May Amelia series •
Our Only May Amelia (1999) -
Newbery Honor •
The Trouble with May Amelia (2011), illustrated by Adam Gustavson
Our Only May Amelia can be found in the
Newbery Great Girls Boxed Set (1999) along with three other Newbery Winners. ===
Boston Jane novel series=== •
Boston Jane: An Adventure (2001) •
Wilderness Days (2002) •
The Claim (2004)
Key West series •
Turtle in Paradise (2010) -
Newbery Honor •
Full of Beans (2016) - a prequel from the perspective of Turtle's cousin, Beans.
Ginny Davis series Illustrated by Elicia Castaldi •
Middle School Is Worse Than Meatloaf: A Year Told Through Stuff (2007) • ''Eighth Grade is Making Me Sick: Ginny Davis's Year In Stuff'' (2012)
The Stink Files series In collaboration with Jonathan Hamel, illustrated by Brad Weinman •
The Stink Files, Dossier 001: The Postman Always Brings Mice (2004) •
The Stink Files, Dossier 002: To Scratch a Thief (2004) •
The Stink Files, Dossier 003: You Only Have Nine Lives (2005)
Babymouse series Graphic novels, in collaboration with
Matthew Holm •
Queen of the World! (2005) •
Our Hero (2005) •
Beach Babe (2006) •
Rock Star (2006) •
Heartbreaker (2006) •
Camp Babymouse (2007) •
Skater Girl (2007) •
Puppy Love (2007) •
Monster Mash (2008) •
Babymouse: The Musical (2009) •
Dragonslayer (2009) •
Babymouse Burns Rubber (2010) •
Cupcake Tycoon (2010) •
Mad Scientist (2011) •
A Very Babymouse Christmas (2011) •
Babymouse for President (2012) •
Extreme Babymouse (2013) •
Happy Birthday, Babymouse (2014) •
Bad Babysitter (2015) •
Babymouse Goes for the Gold (2016) Compilations: •
Babymouse Collection Books 1–13
Babymouse Tales From the Locker series Illustrated by
Matthew Holm •
Lights, Camera, Middle School! (July 4, 2017), •
Miss Communication (July 24, 2018), •
School-Tripped (July 29, 2019),
Little Babymouse Picture book, illustrated by
Matthew Holm •
Little Babymouse and the Christmas Cupcakes (October 24, 2016),
Squish series Graphic novels, in collaboration with
Matthew Holm •
Squish: Super Ameoba (2011) •
Squish: Brave New Pond (2011) •
Squish: The Power Of The Parasite (2012) •
Squish: Captain Disaster (2012) •
Squish: Game On! (2013) •
Squish: Fear the Amoeba (2014) •
Squish: Deadly Disease of Doom (2015) •
Squish: Pod vs. Pod (2016)
My First Comics Illustrated by Matthew Holm • ''I'm Grumpy'' (2016) • ''I'm Sunny'' (2016) • ''I'm Silly'' (2017) • ''I'm Scared'' (2017) • ''I'm Cheese''
Comic book anthologies •
Comics Squad: Recess! (2014) Edited by Jennifer L. Holm • "The Super-Secret Ninja Club" by
Gene Luen Yang • "Book 'Em, Dog Man!" by
Dav Pilkey • "Betty and the Perilous Pizza Day" by
Jarrett J. Krosoczka • "The Magic Acorn" by
Ursula Vernon • "Babymouse: The Quest for Recess" by Jennifer L. Holm and
Matthew Holm • "Jiminy Sprinkles in 'Freeze Tag'" by
Eric Wight • "300 Words" by
Dan Santat • "The Rainy Day Monitor" by
Raina Telgemeier and
Dave Roman •
Comics Squad #2: Lunch! (2016) Edited by Jennifer L. Holm and
Matthew Holm • "Crazy Little Thing Called Lunch!" by
Cece Bell • "Snoopy in...Lunchtime Beagle" by
Peanuts • "Babymouse: Lunch Table Champion" by Jennifer L. Holm and
Matthew Holm • "The Case of the Missing Science Project" by
Jason Shiga • "Pikput & Cullen in...Worst Day Ever!" by
Cecil Castellucci and
Sara Varon • "Lucy & Andy Neanderthal: Cave Soup" by
Jeffrey Brown • "Lunch Bomb 1943" by Nathan Hale • "Lunch Girl and the Ominous Origin" by
Jarrett J. Krosoczka •
Comics Squad #3: Detention! (2017) Edited by Jennifer L. Holm,
Matthew Holm, and
Jarrett J. Krosoczka Anthology contributions •
Shelf Life: Stories by the Book (2003), edited by
Gary Paulson • Contains "Follow the Water" by Jennifer L. Holm •
Friends: Stories about New Friends, Old Friends, and Unexpectedly True Friends (2005) • Contains "My Best Friend" by Jennifer L. Holm
Book introductions •
Anne of Avonlea by L. M. Montgomery (originally published 1909) - Introduction •
Too Much Information by Gene Ambaum and Bill Barnes (2012) - Foreword ==Selected awards and honors==