
The Plain in the Prodigy - S5-E3
Continuity mistake: The girl says that she saw a "full on Amish guy" who looked pissed. When she says this to Booth, he hand disappears from her chin instantly. (00:24:40)
The Plain in the Prodigy - S5-E3
Continuity mistake: When finding out that the key cover broke Levi's hand, Bones is holding a bone in her hands and examining it. When the shot changes she isn't holding the bone any more. (00:34:30)

The Beautiful Day in the Neighborhood - S5-E4
Continuity mistake: At the start we see Nate having a drink from his cup and then lower the cup. When the shot changes he's drinking from the cup again. (00:01:00)

The Beautiful Day in the Neighborhood - S5-E4
Continuity mistake: When Hodgins holds up the evidence bag with the bullet in, the bag flips round in his hand instantly. Note the position of the bullet itself and the label on the bag. (00:13:00)
The Beautiful Day in the Neighborhood - S5-E4
Continuity mistake: Near the end, as Parker drinks his milkshake, its contents rise & fall (not counting his drinking some). Also, he moves the glass about enough to illustrate that it's fake - it would have spilled, the way he handles it.

A Night at the Bones Museum - S5-E5
Continuity mistake: The mummy is in direct sunlight with no shadows on him when Cam first walks up to examine him. When Bones and Booth walk up to him, a few seconds later, the right side of his face is in the shadows. (00:04:00)

The Tough Man in the Tender Chicken - S5-E6
Continuity mistake: When Booth is on the phone to Darma asking if they are missing a man that looks like a chicken, the way he holds the poster changes between shots. (00:07:40)

The Tough Man in the Tender Chicken - S5-E6
Continuity mistake: As Hodgins says he will chip in for the pig, the item he's holding has 4 items sticking out of it. When the shot changes, these items change position. (00:31:00)

The Tough Man in the Tender Chicken - S5-E6
Continuity mistake: The position of the pig picture Angela places on the item Hodgins is holding changes places. First it's resting on 2 spikes then 3. (00:31:05)

The Tough Man in the Tender Chicken - S5-E6
Continuity mistake: The amount of paint on Wendel's hat keep changing drastically. Most noticeable is when Bones stops him spinning and leans him forward. (00:34:15)

Continuity mistake: When Angela tells Gordon about the python, Gordon has the sandwich up to his mouth in one shot and lowered in the next. (00:23:40)

Continuity mistake: When Angela is in the diner with Gordon, she has her drink in her hand. When the shot changes, her glass is on the table. (00:23:40)

Continuity mistake: When Novarro, Booth and Bones are looking at the drain, there are a few marks on the floor by Booth's feet. In the close up these marks have disappeared. (00:27:00)

Continuity mistake: When realising that the victim wanted "an averaged sized woman", Booth has a folder by his mouth. Camera cuts and it's gone. (00:34:40)

Continuity mistake: When Bones is examining the ring, the position of the ring and her fingers is constantly changing. (00:37:05)

The Gamer in the Grease - S5-E9
Continuity mistake: Fisher is putting a glove on his right hand when Dr Saroyan walks in. It cuts between them a few times, then we see him turning to the table to explain about the bones and neither of his hands are gloved. A short while later he turns to put on gloves - he regloves his right hand, it goes back to Dr Saroyan for a second, then back to him turning towards the table and both hands are now gloved. (00:17:20 - 00:18:20)

The Gamer in the Grease - S5-E9
Continuity mistake: At the end, Booth asks what the flaw is in his reasoning. When he does he's holding up a quarter. When the shot changes his hand is now against his head. (00:39:50)

Continuity mistake: Cam points out near the start that Booth has evidence in his hair. Booth then raises his hand as if to find it and raises it up near the top of his head. When the camera cuts his hand however is near his ear. (00:07:20)

Continuity mistake: When we see Wendal and Angela in bed, Wendal has his arm up by his head in one shot and lowered in the next. (00:08:30)

Continuity mistake: Wendal says he's worried about Hodgins not knowing about him and Angela. When he does, he's stroking Angela's shoulder with his finger tips in one shot but got his whole hand on her shoulder in the next. (00:08:50)
Answer: Answering my own question here but, having contacted various people involved in the production of Bones including Kathy Reichs, Hart Hanson, Eric Milligan, and Deirdre Lovegood who portrayed Taffet onscreen I finally have the answer. No-one know how she did it due to her constantly working alone. And she never revealed this information before her death.
Ssiscool ★