Which films were shot at Milford Sound?

The Lord of the Rings confusion, cleared up
Fiordland is genuinely full of Middle-earth. It is just not at Milford Sound. Snowdon Forest and the Mavora Lakes stood in for Fangorn, Lake Manapouri played the country south of Rivendell, the Waiau River became the Anduin, and Kepler Mire was used for the Dead Marshes. Every one of those sits well away from the fiord and none of them appears on a Milford cruise. Tours marketed as Milford Sound Lord of the Rings trips are trading on a mix-up between a region and a location.
The other question that turns up in search results is whether a Brad Pitt film was shot here. There is no reliable source for that. It appears to be a confusion with something else and it is not worth building a day around.
What was actually filmed here
X-Men Origins: Wolverine, released in 2009, and Alien: Covenant, released in 2017, both used the fiord and the country around it. If you want the reason those crews came, it is the same reason the cruises exist: rock walls over 1,200 m on both sides, Mitre Peak at 1,692 m, and a landscape with nothing modern in the frame. You see it from the deck, as described in what to expect on board.
If Middle-earth is the point of the trip, the drive matters more than the boat. The Eglinton Valley flats and Mirror Lakes on the Milford Road are the scenery people came for, and coach trips stop at both. Routes are in how to get there.
Book the cruise, not the myth
The coach and cruise day tour covers the Milford Road with a nature guide and a two-hour cruise, which is the honest version of a Fiordland film-locations day.
Frequently asked questions
Was Lord of the Rings filmed in Milford Sound?
No. No scene from those films was shot in Milford Sound itself. Fiordland locations used include Snowdon Forest and the Mavora Lakes for Fangorn, Lake Manapouri, the Waiau River and Kepler Mire, all of them away from the fiord.
What movies were filmed at Milford Sound?
X-Men Origins: Wolverine in 2009 and Alien: Covenant in 2017 both shot in and around the fiord. Whether it is worth the trip for the scenery alone is answered in is a Milford Sound cruise worth it.
Are there Lord of the Rings tours at Milford Sound?
Trips are sold under that name, but they are relying on Fiordland’s wider film history rather than anything filmed at the fiord. Book a Milford cruise for the fiord and treat the film connection as regional.