The level of orange juice in Mariana's glass when Beck talks to her at the bar.
When Beck punches out the camera in outpost 1 the tattoos on his right hand fingers are gone.
When the jeep falls off the cliff, the shot right before it hits the water has the jeep leaning forward (about to hit the water hood first), but in the next shot it lands flat.
When Beck walks into the bar at the start of the movie he puts his sunglasses in his inside jacket pocket. In the next shot, he does it again.
When Beck, Travis, and Mariana are riding in the boat and she attempts to shoot him, there is a huge patch of algae on Travis' left. The next time we see that side of the boat it is gone.
All the characters speak Portuguese so badly that sometimes it's impossible to understand what they are actually saying.
When Mariana lifts the gold statue without any effort it is obvious that it is a fake. The weight of gold is a lot (19,3 g/cm3), so that "Gato"'s weight is at least 20kg.
During the bus explosion, the force pushes Travis away from the bus, but Beck's shirt is blowing in the wind *towards* the bus.
Although Travis is handcuffed, during the fall down the cliff the stunt double's hands are clearly free of restraints for some of the shots.
Beck gets hit by his own stunt double when falling down the hill after crashing the jeep.
When Declan is driving Beck into El Dorado, they stop for a truck full of rebels and Declan explains who they are. In a close-up of Declan, his mouth is moving but he's saying something completely different from what we hear.
When Beck and Travis are swinging upside down, they are talking but their mouths aren't moving.
During the fight between Beck and the head Kontiki rebel, each pass of the rebel's knife sounds a "shwing" as if scraping metal; even while completely missing Beck's FLESH.
Just before the bulls come charging into the town, you hear glass bottles clinking together, but they are plastic in the close-up.
Beck and Travis were attacked by African baboons.
Wooden supports in the cave would not have lasted 800 years in a jungle environment.
At the end, Beck drops his bag to fight Travis, then when they walk away he never picks it back up.
At the start of the film when Beck is pointing out the guys surrounding Knappmiller, he refers to the character of David as Jimmy, the other man in the relevant scene.
When Travis goes to the washroom in the jungle he never zips himself back up!
Beck points "Jamal Johnson" in the club but it is later made clear that the character's name is Kambui Jackson. This also happens with a few of the other football players.
Beck tells Travis that he "dropped out of Stanford after two semesters". Stanford is on the Quarterly system, and not the Semester.