In addition to writing for his own zine, Cometbus has contributed stories to several other zines such as Absolutely Zippo, Maximum Rocknroll, and Tales of Blarg, occasionally writing under the pseudonym Skrub. His work is easily recognizable by his distinctive, block-lettered handwritten script. His handwriting also appears in the liner notes to Jawbreaker's Etc. compilation.

On August 1, 2002, Last Gasp Publishing released Despite Everything: A Cometbus Omnibus, a 608-page compendium of selections from early Cometbus issues, which are long out of print and often difficult to find. The following year, Cometbus released a novel called Double Duce, a memoir of his experiences living in a squalid Berkeley punk house with a diverse assortment of oddball roommates. The entirety of Double Duce was hand-written by Cometbus, with some selections taken from older issues of Cometbus. Aaron has also released a few smaller collections of short stories, entitled Chicago Stories and Mixed Reviews.

A novel titled I Wish There Was Something That I Could Quit, was published on March 15, 2006.

Cometbus #51 "The Loneliness of the Electric Menorah", released in September 2008, chronicles the history of Moe's Books and other longtime businesses of Telegraph Avenue in Berkeley, California.

Cometbus #52 was called "Spirit of St. Louis, Or, How To Break Your Own Heart, A Tragedy In 24 Parts". Aaron says in his blurb: "It all starts with the story I've told so many times it's turned stale and tired from overuse. There I was, dropped off in a city far from home. I didn't know a soul or have a hope, and so on..." Both issue #52 of Cometbus and his novel "I Wish There Was Something I Could Quit" are rumored to be about his stay and relationships in Pensacola, Florida.

His latest work is Cometbus #53 which features a lengthy piece on the early days of punk and art and comics in NYC in the mid-1970s that is largely derived from an in-depth interview Aaron conducted with John Holstrom, the co-founder of the legendary Punk Magazine. This also has contributions from Maddalena Polletta.