The final level Ministry of Fear had human beings as NPCs rather than some unhostile aliens.The iconic title image of Duke Nukem shooting Pig Cops instead of an Enforcer originally was uncompressed and had a much higher size as an original artwork.It's up to debate if this Quick Save option was only used for testing and never was intented for the retail version.

The port had a Quick Save function, much like the in the original Duke Nukem 3D.Originally the port had the Damn I'm Good difficulty and the enemies respawned as usual, but it got removed on the retail version.Even a superficial analysis of the prototype shows multiple development details about the port: In January 2020, the anonym user nukemania from the forums managed to obtain and dump a preview prototype from Duke Nukem Total Meltdown. The game features a deathmatch mode for multiplayer, but only between separate consoles (i.e. The game is compatible with analog controllers. It also includes a new final boss, the CyberKeef. The new episode includes six new enemies: a blue-colored Assault Trooper variant, Ghost Enforcer, Pig-in-a-Dress, a zombie-like Pig Cop, Magnum P.I.G., and the underwater shark-like Sentry Drone.

It features a complete re-rendering of all the weapons and enemies, and a combination of bespoke and rearranged music, some rearranged from the PC version, and some original, in XA streaming audio made by Mark 'madfiddler' Knight, .uk. The secret level was also included in the PC version. The port features all three episodes of the original game, plus one additional episode: Plug 'N' Pray, which includes six extra levels and a secret level.

During this episode, Duke is out to battle the aliens again, this time aiming to destroy a very powerful robot they've built to kill him. The story is the same as the original game with the exception of the port's exclusive episode: Plug 'N' Pray.

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