Stage 1 - Present Time New Los Angeles[edit]
Above Ground: The major section of the hub stage that Duke explores throughout most of the start of the game before going back in time. The area mainly consists of the Bootylicious Club (a strip club and bar), a main street which connects to a backalley where there is a back-entrance into an apartment belonging to a dominatrix. There is also a large warehouse that is locked off and a factory as well. There is also an entrance to the subway station. Subway: This is where the teleporter is located that enables Duke to travel back in time to the various time-periods of which his ancestors existed.
Level 1 'Time to Kill': 7 secrets[edit]
Stage 2 - The Old West[edit]
Duke now wonders what the aliens are up to in the Old West. But, to find out, he needs to get inside the bank vault. Then, once he knows it, he can grab a key and storm the nearby garrison, where a mine shaft has been excavated. That shaft brings him to end. The important thing now, though, is to find the 3 pieces of paper scattered through the stage that hold the combination to the bank vault.
Level 2 'Duke Hill': 7 secrets[edit]
Level 3 'Miner 69er': 6 secrets[edit]
Level 4 'Gold and Guns': 3 secrets[edit]
Boss Stage 1: 'The Reaper'[edit]
Stage 3 - Alternative Future New Los Angeles[edit]
Welcome back, Duke. Unfortunately, instead of a hero's welcome, things are even worse than when he left. Like in Stage 1, the idea here is to collect the crystals and warp back to another time. Unlike in Stage 1 though, this time Duke enters an area wherein he was unable to explore before: the Warehouse. The whole of New Los Angeles seems to have been taken over by the Alien Opposition since the events in the second stage.
Level 5 'Obey or Die': 3 secrets[edit]
Stage 4 - Medieval Times[edit]
Duke begins this stage standing across a moat from a castle owned by his long-gone ancestor Baron Von Nukem. He must storm into the castle and retrieve all the pieces of his family's treasured jewels in order to return back to his present time.
Level 6 'Family Jewels': 4 secrets (game bug expects 5)[edit]
Level 7 'Resistance is Feudal': 3 secrets[edit]
Level 8 'Holy Terror': 4 secrets[edit]
Boss Stage 2: 'Wing'ed Death'[edit]
Stage 5 - 'Still Not Quite Right' Future New Los Angeles.[edit]
As always upon return to the present, Duke is found in the small park right outside the bar (now called Danglers with male dancers). Obviously things are still not right, and Duke must go out there and fix it. In order to do so, he must repair the Time-Space Warp which has been flooded in and is also missing a piece for the portal device. In order to recover this piece, Duke needs to blast his way through the pig-infested factory.
Level 9 'Pig Factory': 4 secrets (game bug expects 5)[edit]
Stage 6 - Imperial Rome[edit]
Duke sports a toga here as he enters the Roman Era. He starts out in a small hallway overlooking a Roman bath holding some very fine looking Roman babes. Here, Duke must blast his way through the Roman bath house in search of a key and pass through an arena filled with all-nasty surprises which will eventually lead him to a labyrinth that concludes in a Roman palace. However, before Duke can finish in this time, he must confront the unholy bloody bath house which is hosted by the final Boss of the game.