The leg that Renaldo Aranda was shot in changes between scenes. He is initially shown holding and bleeding from his left leg, but for the remainder of the show it is shown as his right.
When McGee was talking to Bishop about the Kobayashi Maru on Star Trek II: The Wrath of Khan (1982), it was a test done at Starfleet Academy, not just the Enterprise.
Irritable Bowel Syndrome (IBS) is impossible to diagnose histologically (microscopic tissue examination) or forensically, rather it is diagnosed by exclusion of other causes in conjunction with differential diagnosis. Abby could not conclusively say someone had IBS simply by examining their garbage or food waste.
People using the radios keep talking over each other and can hear each other but no one lets go of the handset button so they can hear.
Both Gibbs and DiNozzo refer to the San Dominick as a boat. Working for NCIS, both of them should know that it's a ship, especially Gibbs.
When Gibbs is telling Borin where to look for what turns out to be a body in the water, he says "at your two o'clock". Both of them are looking more at their one o'clock direction.