In the ending scene, Tony asks Pendergast for her number in writing, again. Roughly 10 minutes prior to that when Pendergast is in the parking garage, Tony calls her cell, from his cell.
Nelly Benin's Russian (shown as Russian Federation) passport has the date of issue written as 05.14.2011. Russia, along with most of the world, uses the date format dd.mm.yyyy, so it should be 14.05.2011.
When the team enters the bar, Gibbs spots the scientist and says "McGee, your one o'clock", but her location is more like McGee's 10 o'clock. 12 o'clock is straightforward, 1 o'clock would be slightly off to McGee's right. 10 o'clock is not quite 90 degrees to his left, which is where he looked.
During Ducky's monologue about berserkers, he uncharacteristically mispronounces the Latin name of the fly agaric mushroom (Amanita muscaria) as "Amarita".