Here's where the break between Fiction and Non-Fiction titles gets tricky. As one of Hughesy's favourite authors, you'd be inclined to sit most of Thompson's gonzo journalism under the Non-Fiction label, but he did write some fiction (The Rum Diary) and this page gives me a point to link to the various works that will eventually appear in the Non-Fiction pages, sorted by title rather than author.
That's my excuse and I'm sticking to it.
1967 Hell's Angels: The Strange and Terrible Saga of the Outlaw Motorcycle Gangs
1971 Fear and Loathing in Las Vegas
1973 Fear and Loathing on the Campaign Trail '72
1979 Gonzo Papers, Vol. 1: The Great Shark Hunt: Strange Tales from a Strange Time
1983 The Curse of Lono, illustrated by Ralph Steadman
1988 Gonzo Papers, Vol. 2: Generation of Swine: Tales of Shame and Degradation in the '80s
1990 Gonzo Papers, Vol. 3: Songs of the Doomed: More Notes on the Death of the American Dream
1994 Gonzo Papers, Vol. 4: Better Than Sex: Confessions of a Political Junkie
1997 The Fear and Loathing Letters, Vol. 1: The Proud Highway: The Saga of a Desperate Southern Gentleman 1955–1967
1998 The Rum Diary
2000 Screw-Jack
1996 Mistah Leary – He Dead
2000 Fear and Loathing in America: The Brutal Odyssey of an Outlaw Journalist 1968–1976
2003 Kingdom of Fear: Loathsome Secrets of a Star-Crossed Child in the Final Days of the American Century
2004 Hey Rube: Blood Sport, the Bush Doctrine, and the Downward Spiral of Dumbness Modern History from the Sports Desk
2006 Gonzo: Photographs by Hunter S. Thompson
2008 The Mutineer: Rants, Ravings, and Missives from the Mountaintop 1977–2005
2005 Happy Birthday, Jack Nicholson
2011 Fear and Loathing at Rolling Stone: The Essential Writings of Hunter S. Thompson