Dune II: The Building of a DynastyThere are references to Dune II: The Building of a Dynasty, of which Dune 2000 is a remake: the manual says that the mentat Ammon of House Ordos was executed. Ammon was the mentat who assisted the player in the Ordos campaign in Dune II: The Building of a Dynasty. This makes Dune 2000 seem like a sequel and not just a remake.
Fremen languageThere is some Fremen language heard in the videos. For example in the Atreides campaign, when Noree Moneo gives coffee to Kari, he says "Subakh ul kuhar" (Are you well?). When he mentions the Fremen hostages, Kari says "Tahadi al-burhan! Taqwa!" (Ultimate challenge! Price of freedom!).
Frank Herbert created Fremen words as corrupted versions of modern Arabic, showing how they will evolve in the future. For example "subakh ul kuhar" is from modern Egyptian "Sabah El Kheir".
German versionIn the German version death cries were removed and the blood which shows up after killing an infantryman was coloured black.
SequelThe game Emperor: Battle for Dune is a direct sequel to Dune 2000. Indeed, in the beginning of Emperor: Battle for Dune you will be shown the Ordos ending sequence from Dune 2000. This the first game by Westwood Studios in which the victory of the evil side is made part of the canon.
Universe errorsAlthough the game is based on the Dune universe and follows its background, the scenario doesn't fit in the timeline established by the novels. For example, there was no emperor Frederick IV, and Arrakis was not the place of war between rival powers. The Atreides campaign mentions Duke Leto, indicating that the timeframe is that of the original Dune novel. In Leto's time, the emperor was Shaddam IV.
While the House Ordos is inspired from the Dune Encyclopedia, their insignia seen in the game is not the one shown there, but the insignia of House Wallach.
In the Atreides cutscene where the Fremen Kari is introduced, Noree Moneo tells the player: "She's Naib... Fremen Death Commando". In Herbert's novels however, the Death Commandos are called Fedaykin, not Naib. A Naib is the leader of a sietch and is typically male.
Information also contributed by Boston Low.