When you return to the warehouse after the shootout there are till bodies upon the floor. These would have been removed as soon as possible by the coroner.
When Nick and Khai are in the swamp Nick is attacked by a gator. Khai stabs the gator thru the roof of it's mouth instantly killing it. In actuality, this would do nothing more than piss the gator off. For even a chance at an instant kill, the knife would half to penetrate the thick skull at the top of the gator, right between it's eyes.
In spite of having been closed for many years, the Miami Aquatic Stadium still has flags flying. These would have been taken down when it closed.
When Mr. Mendoza rescues Boomer, Boomer can be heard saying that he heard gunshots, even if you don't shoot anyone.
If Mr. Mendoza and Ms. Khai break into a house and shoot it and several people up, the people who own the briefcase of money should be suspicious as to why they are there and check the briefcase, finding the planted phone in the process.
After crashing in a car, Dune states that her leg is broken, and then proceeds to walk. If her leg was broken, she would not be able to walk, nor even stand up.