Continuity mistake: Hive tells Daisy that he knows she feels bad about lying to Lincoln. She has her head turned to the side, looking up directly at Hive in her close-up. Then, when the angle changes to show Hive, suddenly Daisy is looking straight ahead at her computer screen. (00:31:58)
Absolution - S3-E21
Continuity mistake: On the security camera, Fitz yells at Simmons that she has a good memory, then asks, "I mean you do, right?" and then he starts to turn to look at the Primatives advancing on him. He's standing up straight, back against the wall with both arms down at his side. Then it jump cuts to a front view of him, and suddenly he's bent over with one hand planted back against the wall. (00:37:45)
Absolution - S3-E21
Continuity mistake: In the hangar, Simmons unlocks the security door so Fitz can escape the primitives. The control panel changes from a red SHIELD logo reading "RESTRICTED AREA" to blue reading "CLEARED," indicating the door is open. However, moments later while Fitz is fighting the primitives with a fire extinguisher, the door remains open even though the panel shows red and "RESTRICTED" again, then briefly turns blue before switching back to red as it closes. (00:38:03)
Absolution - S3-E21
Continuity mistake: Fitz drags another agent through the door as it's closing, and one of the Primitives is shown grabbing at the agent's foot, barely missing before it goes through the threshold. Then, in the next shot, suddenly the Primitive is still falling through the air, trying to reach out for the foot that's already inside the door. (00:38:08)
Continuity mistake: Daisy and James are talking in the bar, and she says she thought Aussies hated American beer. He goes to sit down and says not when it's free, and he is holding his cup in one hand and the pitcher in the other, still holding both as he's sitting down on the bar stool. Then, in the next shot from behind, suddenly his cup and pitcher are already set down on the bar while he's still in the motion of sitting down. (00:13:04)
Continuity mistake: Daisy tells James, "It's not their fault; they don't know any better," and she's looking straight ahead right at him. Then, in the next shot, she's suddenly turned to the side, looking down at the floor while he's responding. (00:14:00)
Chaos Theory - S3-E7
Revealing mistake: When Lash holds Rosalind over the ledge before dropping her, you can see her legs dangling and swinging in a very non-human way. It's obviously a doll or mannequin with ragdoll legs. Especially when her knees bend backwards to what they are supposed to.
4,722 Hours - S3-E5
Continuity mistake: When Jemma tells the astronaut, Will, she will be the voice of hope and he the voice of doom. He is looking directly at her after they shake hands. Then, in the next shot, he is looking straight forward away from Jemma. (00:22:45)
Continuity mistake: When Daisy is hugging Jemma after proving they're both human, Daisy's right arm is hooked entirely around Jemma's neck. There's an angle change and a lens flare (possibly to help cover the cut) and Daisy's right arm is now at 90°, with her hand on Jemma's left shoulder. (00:21:15)
Continuity mistake: When Simmons is scanning the tree, first she holds the scanner vertically, then the shot changes and instantly she is holding it horizontally. (00:07:50)
Continuity mistake: In the interrogation room, Skye asks "The truth. What are you after?" and Agent Ward replies "World peace." A few seconds after this line, the light on Skye's head and hair keeps appearing/disappearing/changes position. (00:22:25)
Continuity mistake: When Agent Ward goes onto the aircraft to find Agent Fitz and Agent Simmons having an argument, Simmons put a cup of coffee on the desk. It vanishes from the desk a few seconds after she does this. (00:15:40)
Chosen answer: Coulson believes he was resuscitated then sent to Tahiti to recuperate. "A magical place," he calls it. But in the "Agents of S.H.I.E.L.D." episode "The Magical Place", Coulson, through a mind-reading machine, learns that he was treated by S.H.I.E.L.D. and a fake memory of Tahiti was placed as a "mask" of sorts over the painful memory of the operation, which involved a drug seemingly of alien origin to repair the damage, coupled with a lot of morally dubious surgery.