Blazing Saddles: A dimwitted foreman named Taggart is building a railroad in the intervals of being Hedy ("That's Hedley!") Lamarr's henchman. Cut to Ayn Rand's magnum opus Atlas Shrugged (1957), in which Dagny Taggart is trying to save the railroad her grandfather built...
The Pagemaster: Richard pushes over a giant copy of Atlas Shrugged.
In the middle column, the colony ships she and her fleet had taken: the Bedyadat Jadida, out of Luna. The John Galt and the Mark Watney, out of Mars.
In Save the Enemy, Zoey's libertarian dad worships Ayn Rand and has written lots of notes like "TRUE!" and "SO TRUE!" in the margins of Atlas Shrugged. He named the family's first dog Galt, and his computer password is JohnGalt123.
In Mad Men, Bert Cooper has a copy of Atlas Shrugged in his office. He sees himself as the embodiment of Ayn Rand's objectivist ethical philosophy — the ultimate ethical egoist / rationally selfish man. All his actions are, in one way or another, directed by a pragmatic attitude of what he thinks is best for himself.
Doom Eternal: The shelves in the Slayer's office on the Fortress of Doom contain items referencing various pieces of media, including books, movies and, of course, video games including a piece titled Atlas Ripped and Teared.
Stellaris: Before the update that changed the names of that axis, Radical Individualists could get dialogue which referenced Atlas Shrugged.
South Park: In "Chickenlover", the Book Mobile Driver gives Officer Barbrady a copy of Atlas Shrugged as a reward for learning to read. In the end, Barbrady declares that after reading it he found it such a piece of garbage he's sworn off reading forever.