At around 12m10s, agent Sinclair is lock-picking the door. Lock-picking being a skill of stealth, there's no point in doing so if the next action is to slam it against the wall once the door is open.
During the beginning of the episode when Alan first walks in, Don calls his father by his own first name. Not sure if it's a real goof or not, but it would be weird calling ones father by his own name when normally Don calls Alan by dad.
When Charlie, Amita, Megan, and Dr.Trowbridge are in the FBI office discussing the number 888 and Dr. Trowbridge lists the numbers associated with the Greek spelling of "Jesus", she both writes them on the board and verbalizes them. She lists "8, 200, 70, 400, 200" out loud, which Amita says total "888", despite those numbers adding up to only 878. However, Dr. Trowbridge writes the correct numbers on the board (10, 8, 200, 70, 400, 200) which accurately add up to 888.