As far as I know there is no list for games that came in long boxes
here you go

. my USA collection is about 98% boxed
(i need 8 more boxes and 2 manuals)
any other long boxes out there come from other countries like Korea (Firewall game for example)
i put the ones sold in jewel cases at the bottom
--20th Century: Video Almanac ---- (cd & manual)
--3D Atlas ---- (complete)
--3DO Club: Station Invasion ---- (complete)
--3DO Maniac Pack -- (4 CD games, complete) - Alone in the Dark, Battle Chess, Way of the Warrior, Out of this World
--3DO Action Pak -- (4 CD games, complete) - Soccer Kid, Slayer: Advanced D&D 2nd Edition, Shanghai: Triple Threat, Dragons Lair
--Advanced Dungeons & Dragons 2nd Edition: Death Keep ---- (complete)
--Advanced Dungeons & Dragons 2nd Edition: Slayer ---- (complete)
--Alone in the Dark ---- (complete)
--Alone in the Dark 2 ---- (complete)
--B.C. Racers ---- (complete)
--Ballz : the Directors cut ---- (complete)
--Battle Chess ---- (complete)
--Battlesport ---- (sealed)
--Blade Force ---- (complete)
--Brain Dead 13 ---- (complete)
--Burning Soilder ---- (sealed)
--Bust -A- Move ---- (complete)
--C.P.U Bach by Sid Meier ---- (Box & CD - need manual) !!!!!
--Cannon Fodder ---- (complete)
--Captain Quazar ---- x2 - (both complete)
--Carrier: Fortress at Sea ---- (complete)
--Casper ---- (complete)
--Corpse Killer ---- x2 (CD case and small manual, plus Large box version with large manual)
--Cowboy Casino ---- (complete)
--Crash-N-Burn ---- (complete)
--Creature Shock ---- (complete)
--Crime Patrol ---- (complete)
--Cyberdillo ---- (complete)
--Cyberia ---- (complete)
--D ---- (complete)
--DOOM ---- (complete)
--Daedalus Encounter ---- (complete)
--Demolition Man ---- (complete)
--Dennis Miller "Thats News to Me" ---- (complete)
--Digital Dreamware ---- (complete)
--DinoPark Tycoon ---- (complete) - now sold
--Dragon Lore ---- (complete)
--Dragons Lair ---- (complete)
--Drug Wars ---- (sealed)
--Escape from Monster Manor ---- (complete)
--ESPN : Baseball - Interactive Hitting ---- (complete)
--ESPN : Skiing ---- (cd & manual)
--ESPN : Soccer ---- (cd & manual)
--ESPN : Step Aerobics ---- (cd & manual)
--ESPN : Tennis ---- (complete)
--ESPN : Tom Kite's Lower your Score ---- (complete)
--ESPN : Beach Volleyball ---- (complete)
--Family Feud ---- (complete)
--Fatty Bear's : Birthday Surprise ---- (cd & manual)
--Fatty Bear's : Fun Pack ---- (sealed)
--FIFA soccer ---- (complete)
--Flashback ---- (complete)
--Flying Nightmares ---- (complete)
--Foe's of Ali ---- (complete)
--Fun 'N Games ---- (sealed)
--Gex - (retail, long box) ---- (complete) also came in jewel case form as a pack in game with the FZ10 unit (not for resale)
--Gridders ---- (complete)
--Guardian War ---- (sealed)
--Gunslinger Collection ---- (3 CD games, complete) - Mad Dog McCree, Mad Dog 2, Crime Patrol
--HELL- A Cyberpunk Thriller ---- (complete)
--Horde, the ---- (complete)
--Icebreaker ---- (sealed)
--Immercenary ---- (complete)
--Incredible Machine, the ---- (complete)
--Iron Angel of the Apocalypse ---- (complete)
--Iron Angel of the Apocalypse : The Return ---- (sealed)
--Its A Bird's Life : by Shelly Duvall ---- (sealed)
--Jammit ---- (complete)
--John Madden Football ---- (complete)
--Johnny Bazookatone ---- (complete)
--Jurassic Park Interactive ---- (complete)
--Killing Time ---- (complete) !! plus the Save Bug Fix Black CD version
--Kingdom : The Far Reaches ---- (complete)
--Learning Cube : Mathmagics ---- (complete)
--Learning Cube : Slopestyle ---- (sealed)
--Lemmings ---- (complete)
--Lost Eden ---- (complete)
--Lucienne's Quest ---- (cd & manual)
--Mad Dog McCree ---- (complete)
--Mad Dog 2 ---- (complete)
--Mazer -----------(complete)
--Mega Race ---- (complete)
--Microcosm ---- (complete)
--MYST ---- (complete)
--Need for Speed ---- (complete)
--NeuroDancer ---- (complete)
--Night Trap ---- (complete)
--Novastorm ---- (sealed)
--Ocean's Below ---- (complete)
--Off World Interceptor ---- (complete)
--Olympic Soccer ---- (complete)
--Olympic Summer Games ---- (complete)
--Out of this World ---- (complete)
--Panzer General ---- (complete)
--PaTaank ---- (complete)
--Pebble Beach Golf ---- (complete)
--Perfect General ---- (cd & manual)
--PGA Tour Golf '96 ---- ( complete)
--Phoenix 3 ---- (sealed)
--Plumbers Dont Wear Ties - (NC-17) ---- (complete)
--PO ' ed ---- (complete)
--Primal Rage ---- (complete)
--Psychic Detective ----- (complete)
--Putt Putt : Fun Pack ---- (sealed)
--Putt Putt : Goes to the Moon ---- (sealed)
--Putt Putt : Joins the Parade ---- (sealed)
--Quarantine ---- (complete)
--Quarterback Attack ---- (complete)
--Real Pinball ---- (complete)
--Return Fire ---- (complete)
--Return Fire: Maps O` Death ---- (complete)
--Rise of the Robots ---- (sealed)
--Road Rash w/Music CD ---- (complete)
--Robinson's Requiem ---- (complete)
--Samurai Shodown ---- (cd & manual)
--Scramble Cobra ---- (complete)
--Seal of the Pharoah ---- (complete)
--Sesame Street Numbers ---- (complete)
--Sewer Shark ---- (complete)
--Shadow : War of Succession ---- (complete)
--Shanghai: Triple Threat ---- (complete)
--Sherlock Holmes : The Lost Files ---- (complete)
--Shockwave ---- (complete)
--Shockwave: Operation Jumpgate ---- (complete)
--Shockwave 2: Beyond the Gate ---- (complete)
--Slam -N- Jam '95 ---- (complete)
--Snow Job: w/ Tracy Scoggins - (NC-17) ---- (complete)
--Soccer Kid ---- (sealed)
--Space Ace ---- (complete)
--Space Hulk ---- (complete)
--Space Pirates ---- (complete)
--Space Shuttle: by Software Toolworks ---- (complete)
--Star Blade ---- (complete)
--Star Control 2 ---- (complete)
--Star Fighter ---- (complete)
--Star Wars : Rebel Assault ---- (complete)
--Stellar 7: Draxon's Revenge ---- (complete)
--Strahl ---- (complete)
--Super Street Fighter 2 Turbo ---- (complete)
--Super Wing Commander ---- (complete)
--Supreme Warrior ---- (complete)
--Syndicate ---- (complete)
--The Last Bounty Hunter ---- (complete)
--The Life Stage: Virtual House ---- (complete)
--The San Diego Zoo: The Animals ---- (complete)
--Theme Park ---- (complete)
--Toontime : In the Classroom ---- (complete)
--Total Eclipse ---- (sealed)
--Trip'D ---- (sealed)
--Twisted - The Game Show ---- (complete)
--VR Stalker ---- (complete)
--Virtuoso ---- (complete)
--Waialae Country Club Golf ---- (Box & cd, need the manual) !!!!
--Way of the Warrior ---- (complete)
--Who Shot Johnny Rock ---- (complete)
--Wicked 18 Golf ---- (sealed)
--Wing Commander 3 ---- (complete)
--Wolfenstein 3D ---- (cd & manual)
--World Cup Golf ---- (complete)
--Zhadnost: The People's Party ---- (complete w/Controller and Shot Glass)
JEWEL CASE or cardboard sleeve holder and jewel case
--Woody Woodpecker Vol 1 ---- (complete)
--Woody Woodpecker Vol 2 ---- (complete)
--Woody Woodpecker Vol 3 ---- (complete)
--3DO Buffet sampler ---- (complete)
--3DO Interactive sampler #1 ---- (complete)
--3DO Interactive CD Sampler #2 ---- (complete)
--3DO Interactive CD Sampler #3 ---- (complete)
--3DO Interactive CD Sampler #4 ---- (complete)
--Panasonic Sampler CD (fz1 pack in) ---- (complete)
--Sample This sampler ---- (complete)
--ADULT - Blond Justice ---- (complete w/cardboard sleeve)
--ADULT - Endlessly ---- (complete w/cardboard sleeve)
--ADULT - Immortal Desire ---- (cd case & front cover)
--ADULT - Love Bites ---- (cd case & front cover)
--ADULT - Mind Teazzer ---- (Small CD case version, cd case & front cover) also sold in a bigger box
--ADULT - SEX ---- (complete w/cardboard sleeve)
--ADULT - Super Models Go Wild ---- (cd case & front cover)
--ADULT - The Coven ---- (complete w/cardboard sleeve)
--ADULT - Virtual Vivid ---- (complete, CD only, Sealed)