The Man in the Fallout Shelter - S1-E9
Continuity mistake: Booth reaches out to touch the glass and Parker's hand. In the first shot his hand is spread out, in the second his fingers are a lot closer together. (00:25:10)
The Man in the Fallout Shelter - S1-E9
Continuity mistake: When Bones is explaining to Booth about the birth of Christ, Booth has 2 hands on his chin. When the angle changes, he has one hand on the table and one on the side of his head. (00:13:00)
The Man in the Fallout Shelter - S1-E9
Continuity mistake: Booth sits down with bones and takes Angela's hat off. It's still in his hand in one shot and gone the next. (00:12:50)
The Girl in the Fridge - S1-E8
Continuity mistake: When talking to the doctor, he has a pen on the notes in front of him. When the scene ends, the pen has gone. (00:13:05)
The Girl in the Fridge - S1-E8
Visible crew/equipment: When Bones says about her professor wanting to see the equipment there is a tape marker visible on the floor under the remains. (00:09:20)
Continuity mistake: When interviewing Rulz, his jacket is open with the left (screen right) lapel over the of the right (screen left) lapel. During the interview they keep swapping places. (00:33:20)
Visible crew/equipment: When Bones starts the interrogation with Rulz, you can see a shadow moves over Rulz' lower body despite no one moving. (00:32:55)
Continuity mistake: When Booth is showing the belly button ring to Rulz, he holds the bag with the ring on the right side of the bag. Camera cuts and now it's on the left. (00:17:20)
Continuity mistake: When the mummy is discovered in the wall the mouth is closed shut. When the mummy is in the lab the mouth is open. (00:04:30)
Continuity mistake: At the very start Bones is holding the microphone and its pointing towards her. Next shot, Dr Goodman has the microphone pointing at him. (00:00:40)
The Murder of the Meninist - S11-E12
Other mistake: Cam is burning a pork human analogue which is alight with flames. When the analogue explodes and covers Hodgins in meat, he is not burnt by the searing meat. (00:27:25)
The Brother in the Basement - S11-E2
Other mistake: Dr Brennan barges into the interrogation at the end of the episode. Aubrey exclaims out "Dr. Brennan" however, he exclaims before he has seen who it is. (00:33:10)
The Drama in the Queen - S9-E23
Factual error: The IP address shown is not possible. IP addresses are always XXX.XXX.XXX.XXX however we are shown an extra set of digits making it XXX.XXX.XXX.XXX.XXX.
The Prince in the Plastic - S7-E3
Other mistake: Brennan finds Angela assembling a child's toy. She asks "what is all this?" and Angela replies "this is a walking toy for my girl." But Angela didn't have a baby girl, she had a baby boy - Michael Staccato Vincent Hodgins. (00:15:00)
The End in the Beginning - S4-E26
Plot hole: We learn that Agent Booth has a brain tumor that has been causing him to hallucinate. One of the hallucinations mentioned was Parker in "The Hero in the Hold." At the end of the episode, Dr. Brennan both sees and speaks to Parker in the cemetery. Agent Booth believed Parker to be a ghost, and we were to believe that Dr. Brennan had unknowingly had a paranormal experience.
Suggested correction: The implication of that episode was that Parker's ghost was real, since Booth points out numerous things he does during his escape that he couldn't have done on his own. Dr. Brennan seeing Parker at the end of the episode confirms this. Dr. Brennan is the only one to posit that Booth's belief that he saw Parker was a hallucination brought on by his brain tumor, because she did not learn who Parker was when talking to him in the cemetery; Booth was looking the other way, all Brennan knew was that a young man walked up to her and said something about enjoying life. Even if she saw a picture of Parker at some later date, she probably wouldn't recognize him.
Two Bodies in the Lab - S1-E15
Continuity mistake: After Bones and Booth have a little argument at the crime scene, Bones takes her Dictaphone out and starts taking notes. When doing so she is holding the Dictaphone vertically. Camera changes and now it is horizontal. (00:06:00)
Two Bodies in the Lab - S1-E15
Continuity mistake: When Booth asks Bones what happened to seeing someone across the room, eyes meeting etc, Bones hand holds of the top of her clipboard. Camera cuts and her hand has vanished. (00:03:20)
Two Bodies in the Lab - S1-E15
Continuity mistake: At the start when Dr. Goodman interrupts Bones, her hands go from the keyboard to on the arm of her chair instantly. (00:00:45)
The Man on the Fairway - S1-E14
Continuity mistake: When Booth is talking to Max's son about how the simplest explanation is usually right, he is pointing with his finger, camera cuts and he is no longer pointing. (00:29:25)