When Abby is on the hill showing the car to the students, the driver's window has a small hole in it and the glass is cracked. However, when Gibbs has the flashback about the shooting, you see the window shatters outwards.
In he Evidence Garage, Ziva makes the comment that sulfuric acid is the only acid that will dissolve bone. This is not correct. Almost any acid in sufficient concentration will dissolve bone. Hydrochloric and hydrofluoric acids will dissolve bone readily and there are also super-acids (such as Fluoroantimonic Acid) that can dissolve bone quickly.
While being interrogated by Gibbs, Velvet Road reveals that she is immune to snake venom because she owns 2 pythons and a cobra and has been bitten many times. Pythons are constrictors, killing by coiling around their prey to suffocate it. They don't have venom.
In Gibbs's basement Abby says she matched the slug from Reynosa's corpse to Gibbs's sniper rifle. She couldn't do that without firing a test bullet from the suspected rifle, which she didn't do.
The anatomy of the body dummy is wrong, with a good inch of flesh surrounding each of the lower leg bones and both of nearly the same thickness. In fact, the tibia is a lot thicker and lies directly below the skin on the leg's front side.
It was established in Kill Ari 1&2 that Gibbs used as a sniper an M40 308 rifle. However, the round handed to Abby by Paloma Reynosa is a 338 Lapua, a distinctly different round than the 308 fired by Gibbs's rifle.
At one point Anthony DiNozzo refers to a particular machine as a "trash compactor"; however, that term is wrong. A trash compactor, in the usual context, is a mechanical truck body mounted on a truck chassis - a trash truck or garbage truck, as seen often on collection routes in residential neighborhoods. The correct term for a device at a recycling yard is a car crusher, car cruncher, or car smasher.