(written from a Production point of view)
Paramount Stage 9 is located on the Paramount Pictures lot in Hollywood, California.
Most of Phase II's sets were completed when that series gave way to production of Star Trek: The Motion Picture, at which point they were modified and expanded for use in the feature film.
In 1987, with the start of Star Trek: The Next Generation, the sets on Stage 9 underwent modifications to become the USS Enterprise-D, the most drastic of which being the overhaul of the engineering and main bridge sets – the latter becoming the battle bridge.
Edward K. Milkis and Robert Justman viewed the existing film sets for the first time in October 1986 to determine what could be reused for the new series. They found the sets in poor shape due to damage caused by cats living on the stage. (Star Trek: The Next Generation Companion (3rd ed., p. 8))
With new bridge and living quarters sets being constructed on Stage 6 for season one, Stage 9 contained the Enterprise-D's engineering, sickbay, crew quarters, transporter room, shuttlebay, and corridor complex sets. Other sets included the fullsize shuttlecraft mockups and interiors.
Sickbay doubled as the observation lounge: the observation lounge windows were covered with carpet during the sickbay scenes. A new conference lounge was built on Stage 8 for season two. (Star Trek: The Next Generation Companion (3rd ed., pp. 10 & 65))
Stage 8 housed the remaining Enterprise-D interiors used post TNG Season 2 and Generations.
Over the seven season run of TNG, the sets were refined – the corridors were expanded for longer tracking shots – but remained mostly unchanged even through the production of the seventh feature, Star Trek Generations.
Temporary sets filmed on Stage 9 included the Rutian plaza in the episode "The High Ground" as well as scenes aboard the Talarian observation craft in the episode "Suddenly Human", filmed on 27 July 1990. Stage 9 also housed the workout room seen in episodes such as "Clues", filmed on 29 November 1990. The Tamarian bridge seen in the episode "Darmok" was built on Stage 9, filmed on 24 July 1991 and 25 July 1991.
Consisting of four parts, the videos were shot on the night of 10 March 1988 by (at least) two fervent Star Trek fans who had broken onto the Paramount lot. Wandering through the darkened sets of Star Trek: The Next Generation (circa season one), the fans were able to light select parts of the sets, including most of the ship's display terminals and part of the warp core. Dressed in a makeshift Starfleet uniform (with white socks), one of the fans acted as the host of what was likely intended to be a homemade documentary – at one point climbing onto a sickbay biobed, then accidentally knocking it to the floor. Taking still photographs of the various "working" control panels, the fans can be heard discussing ways of removing set pieces from the stage.
According the YouTube user's description of the videos, when the fans were caught, they dropped the camcorder containing the footage and fled. 
After their use in Generations, the sets on Stage 9 underwent yet another revamp for their debut as the USS Voyager. (Star Trek: The Next Generation Companion (3rd ed., p. 321)) Richard James used his TNG experience and designed the Voyager sets to be easier to film than previous ones. (A Vision of the Future - Star Trek: Voyager, page 91)
As on TNG, Stage 9 housed engineering, sickbay, transporter room, junior officers' quarters, the corridor complex, and the shuttlebay/cargo bay/holodeck. A large science lab was eventually constructed here as well. (A Vision of the Future - Star Trek: Voyager, page 83)
While most sets retained their general positions, the Voyager engineering set was dramatically expanded, gaining a large second level. In its previous incarnation, engineering stood as part of the corridor complex and was often modified to represent a junction or living area. The revamp for VOY corrected this problem by making engineering its own compartment – a permanent standing set.
Sickbay was joined by a small biomedical laboratory for the second season, to the consternation of some crew members who felt the space would be better utilized for production storage. (A Vision of the Future - Star Trek: Voyager, page 91)
Stage 8 housed the remaining Voyager interiors used in VOY.
In 1996, Voyager's sickbay was modified for use in Star Trek: First Contact and again in 1998 for Star Trek: Insurrection. The entrance to main engineering also represented the USS Enterprise-E's library, while the transporter room was also reused and slightly redressed.
The science lab set was the first standing Voyager set on Stage 9 to be demolished, on 22 March 2001. Tuvok's hospital room from "Endgame" was constructed in its place. Engineering was dismantled over 29 March 2001 to 5 April 2001. Demolition started on the cargo bay set on 5 April 2001 as well. (Star Trek: The Magazine Volume 2, Issue 4, pages 69-71)
Instead of being home to the interiors of Enterprise NX-01 for Enterprise, Stage 9 housed only that series' cave set and various swing sets. Paramount Stages 18 and 8 housed all of the NX-01 interiors used in Enterprise.
Stage 9 housed the following sets:
- Captain's mess (ENT: "Terra Nova")
- Terra Nova underground tunnels, caves, gutting room, and well (ENT: "Terra Nova")
- Underground catacombs, stairwell, archway, meditation room, and reliquary at the monastery at P'Jem (ENT: "The Andorian Incident")
- Surface of Archer's Comet (ENT: "Breaking the Ice")
- Shuttlepod 1 interior, Akaali forest clearing, and basement mine control room and stairwell (ENT: "Civilization")
- Risan bistro, nightclub, and basement under the nightclub and Hoshi Sato's apartment (ENT: "Two Days and Two Nights")
- Rura Penthe (ENT: "Judgment")
- Bridge of the USS Defiant (ENT: "In a Mirror, Darkly", "In a Mirror, Darkly, Part II")
- Rigel X (ENT: "These Are the Voyages...")
The ceiling of the stage was actually seen in the scenes of "These Are the Voyages...", as it was deemed a good fit for the interior of the complex.
Following the cancellation of Enterprise in 2005, Stage 9 was, for the first time in many years, put into use in non-Star Trek productions.
- Star Trek: Phase II
- Star Trek: The Motion Picture
- Star Trek II: The Wrath of Khan
- Star Trek III: The Search for Spock
- Star Trek IV: The Voyage Home
- Star Trek: The Next Generation
- Star Trek V: The Final Frontier
- Star Trek VI: The Undiscovered Country
- Star Trek Generations
- Star Trek: Voyager
- Star Trek: First Contact
- Star Trek: Insurrection
- Star Trek: Enterprise
- Star Trek Nemesis
- Star Trek (2009)
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- Judith and Garfield Reeves-Stevens, Star Trek Phase II: The Lost Series
- Stephen Edward Poe, A Vision of the Future - Star Trek: Voyager
- Michael and Denise Okuda, Star Trek Nemesis (Special Edition) text commentary
- Michael Okuda, A Brief History of Paramount Stages 8 & 9, StarTrek.com