When Gibbs and DiNozzo are introduced to Bishop at the NSA she is sitting on the floor and you can see she is wearing jeans with holes in the knee and legs. When we next see her in autopsy and she climbs up onto the table the holes are gone.
When Bishop first gives Stalin her card it is considerably rumpled, as if it has been handled a great deal. Later, when Stalin looks at it, the card is brand new without a mark on it.
When Tony picks up the picture of Gracy he is holding it upside down.
However, when he shows it to Gibbs it is the right way up.
NSA has no "special agents."
When Bishop is handed a Kevlar vest, she pokes her finger into a bullet hole and asks if this vest had been used. If a bulletproof vest is shot, then it is removed from service as it is no longer able to protect the wearer adequately to it having been compromised.