There are now spreadsheets that identify the content of the archive without you needing to open every zip and guess.
https://archive.org/download/ibm-lists-details
There are a few things I've seen in the lists that might be something interesting. There is not every time a classic game appears in the lists, just every time I noticed a description suggests it might be something other than the released version
These are all in the "IBM" List. I did a quick look at the WBIZ List but didn't see any games in it, it looked more like non-game utilities, and a few keyword searches for some apogee/id/epic games didn't turn anything up.
[something to do with Duke Nukem, perhaps the original game?]
DUKETRIL.ZIP Duke Nukem Trilogy [1/1] add-on adventuresfor Duke Nukem Uploaded by: Bob
[edit: I was able to test this one and it is just regular Duke Nukem 1 with a cracktro]
[there are at least two Duke 2 beta zips]
DUKE2EXC.ZIP DUKE NUKEM 2 : DISPOSABLE HERO - APOGEEBETA VERSION 1.4 Disk 1 of 1
DUKCKEXC.ZIP DUKE NUKEM 2 : DISPOSABLE HERO - APOGEEBETA PASSWORD BYPASS .COM
[Blakestone, beta or final game?]
BS-PAT12.ZIP Blake Stone : Aliens of GoldFinal Beta ReleaseCrack/Expiration Patch v1.2 [100%]
BSAG1EXC.ZIP BLAKE STONE: ALIENS OF GOLD FROM APOGEEFINAL BETA RELEASE DISK 1/2
BSAG2EXC.ZIP BLAKE STONE: ALIENS OF GOLD FROM APOGEEFINAL BETA RELEASE DISK 2/2
BSTONE-1.ZIP BLAKE STONE: ALIENS OF GOLD FROM APOGEEFINAL BETA RELEASE --- CRACKED!Disk 1 of 2
BSTONE-2.ZIP BLAKE STONE: ALIENS OF GOLD FROM APOGEEFINAL BETA RELEASE --- CRACKED!Disk 2 of 2
BSTRNEXC.ZIP BLAKE STONE: ALIENS OF GOLD FROM APOGEETrainer with Beta Protection Bypass
[Raptor]
HMP-RAPB.ZIP Raptor - Beta From Apogee [1/1]
HMP-RPGD.ZIP Play in God Mode in Raptor Beta
[ROTT, probably just shareware versions or slide shows?]
MANIA2.ZIP Rise of the Triad Preview from APOGEE
RBS-ROT1.ZIP Rise of the Triad Preview from APOGEE
[Xenophage, maybe an earlier version since it doesn't have the word Xenophage in it?]
PSGXEN01.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN02.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN03.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN04.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN05.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN06.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN07.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN08.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN09.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN10.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN11.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN12.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN13.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN14.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN15.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN16.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
PSGXEN17.ZIP ALIEN BLOODSPORT(C)APOGEE xx/17
[Hocus Pocus, probably just the shareware version?]
SLA-HPSS.ZIP Hocus Pocus Screen Shots/Demo from Apogee
[Realms of Chaos]
SLA-PRRO.ZIP Realms Of Chaos Pre-Release From Apogee
DOD-ROCT.ZIP REALMS OFCHAOS BETA interactive trainer
[OMF 2097]
R2!OMFPE.ZIP ONE MUST FALL: 2097 PHOTO EDITOR (c) EPIC!
RBS-OMF1.ZIP One Must Fall 2097 Slideshow Previewfrom EPiC Megagames
[Unreal]
NK_UNR1.ZIP Unreal *BETA* (c) Epic MegaGames x/4
NK_UNR2.ZIP Unreal *BETA* (c) Epic MegaGames x/4
NK_UNR3.ZIP Unreal *BETA* (c) Epic MegaGames x/4
NK_UNR4.ZIP Unreal *BETA* (c) Epic MegaGames x/4
ROR-UNL1.ZIP UNREAL ALPHA LEVELS PREVIEW (C) EPIC x/4
ROR-UNL2.ZIP UNREAL ALPHA LEVELS PREVIEW (C) EPIC x/4
ROR-UNL3.ZIP UNREAL ALPHA LEVELS PREVIEW (C) EPIC x/4
ROR-UNL4.ZIP UNREAL ALPHA LEVELS PREVIEW (C) EPIC x/4
ROR-UNRM.ZIP UNREAL ALPHA MONSTERS PREVIEW (C) EPIC [1/1]
[quake]
AOF-QB01.ZIP QUAKE BETA! x/2
AOF-QB02.ZIP QUAKE BETA! x/2
DOD-QK8A.ZIP QUAKE ALPHA v0.8 (C) id SOFTWARE x/5
DOD-QK8B.ZIP QUAKE ALPHA v0.8 (C) id SOFTWARE x/5
DOD-QK8C.ZIP QUAKE ALPHA v0.8 (C) id SOFTWARE x/5
DOD-QK8D.ZIP QUAKE ALPHA v0.8 (C) id SOFTWARE x/5
DOD-QK8E.ZIP QUAKE ALPHA v0.8 (C) id SOFTWARE x/5
[It looks like there are several Quake and Doom mods/wads/custom levels/tools in here too]
[Death Rally]
IAPDRA01.ZIP DEATH RALLY ANIMATION ADDON! xx/19
IAPDRA02.ZIP DEATH RALLY ANIMATION ADDON! xx/19
IAPDRA03.ZIP DEATH RALLY ANIMATION ADDON! xx/19
IAPDRA04.ZIP DEATH RALLY ANIMATION ADDON! xx/19
IAPDRA05.ZIP DEATH RALLY ANIMATION ADDON! xx/19
[Doom]
[lol] DOOM-X12.ZIP Patch for Doom turns corridors into X-Ratedhalls of excitement and thrills
DOOM01.ZIP Doom Preview [1/4]
DOOM02.ZIP Doom Preview [2/4]
DOOM03.ZIP Doom Preview [3/4]
DOOM04.ZIP Doom Preview [4/4]
DOOM0522.ZIP Doom BETA Pre-Release 1/1
DOOM1_4.ZIP Doom 1.4 beta This is the real thing!
DOOM16BT.ZIP DOOM V1.6 BETA
[Wolfenstein, a few unusual sounding mods]
[lol] WLFNEWGR.ZIP X-Rated Castle Wolfenstein (hacked) [1/2]
[lol] XXX-WOLF.ZIP X-Rated Castle Wolfenstein (hacked) [2/2]
WOLF3DMK.ZIP Wolfenstein 3d - Mortal Kombat Edition