- As Nate's briefing his team Cutter constantly interjects, explaining a James Bond reference and when T.E. Lawrence is brought up, responds with "Great film."
- One that comes with a hefty dose of Fridge Horror: In the pub, there's a newspaper on the wall headlined "Scientists Are Still Struggling To Understand Deadly Fungus". The action's happening in 2011 - exactly two years before The End of the World as We Know It from The Last of Us. Though obviously the Uncharted sequels mean it's confined to Production Foreshadowing status rather than a Shared Universe.
- An upset Sully growls "What is this black ops bullshit?" after Team Drake realizes that Charlie Cutter has been hit with some manner of mind-control dart. In Call of Duty: Black Ops, the big plot twist is that the main character, Alex Mason, has been brainwashed for most of the game.
- The bus has a Sackboy doll hanging from the front mirror.
- Nate does a Living Daylights. If you haven't seen that movie, that means Nate is fighting bad guys while hanging out the back of a cargo plane in mid-flight.
- Possibly just straight Getting Crap Past the Radar, but the name of Rameses's ship is The Seaward.
- As Nate wanders through the desert, the voice-over recites an unattributed excerpt from T. S. Eliot's "The Waste Land".
- Nate rides a horse through a tight canyon, looking very much like the end to Indiana Jones and the Last Crusade.
- Talbot's blowdarts and the water in Iram of the Pillars seem to be tainted with the Scarecrow's fear toxin.
- Again, not necessarily intentional, but it's nice to think that Sully's "This is why we can't have nice things!" in Chapter 22 was a deliberate reference to Archer.
- There's a medal in the multiplayer called Drakes On A Plane.
Shout Out / Uncharted 3: Drake's Deception