- Crew or equipment visible: In the interrogation room a camera and a crew member is reflected in the 2-way mirror. Between 50:44 and 50:45 during 8 picture frames (72998-73006).
- Continuity: When Rigg arrives at the shop, the clock shows 1:16. But, at a second look, it's 3:46
- Continuity: When Agent Strahm has his outrage, after he has called Agent Perez's mother, the first time he knocks down the papers the computer screen shows "normal use". When they show the knocking over again zoomed in the computer screen shows the windows welcome screen, then back to "normal use".
- Boom mic visible: During one of the interrogation scenes a boom mic is visible in the reflection of the 2-way mirror.
- Continuity: When the two FBI agents find the tape and the puppet in the school building, the tape recorder can be seen running before agent Perez actually pushes the "play"-button.
- Revealing mistakes: At the beginning of the movie, the organ scale in the background can be seen reading just under 1/2 pound. The needle never moves, even when John's brain is taken out of it a minute later, it still reads 1/2 pound and never moves to zero pounds when emptied.
- Factual errors: During the autopsy, when the brain is taken out of the skull, it is not attached to the brain stem and spinal cord. it is loose in the skull. in reality, lots of dissections are needed for it to be done.
- Continuity: When Officer Rigg enters the hotel room with the box on the bed, there is a photo of his wife on top of it. On the back of the photo, the words "she needed you" are clearly displayed in red ink. However, as he opens the box, you can see the that the back of the photo now reads "she needs you" instead from the letters "eds" at the edge of his hand.
- Continuity: During the beginning autopsy scene, the person performing the autopsy puts his mask on upside down (the eye splash guard is at his neck). As soon as the camera jumps, the face guard is positioned correctly.
- Factual errors: When Rigg is watching the interrogation video of Jigsaw's ex-wife he is looking at several books and magazines about Jigsaw. The book he picks up is titled "Jigsaw: Is He The Murderer The Police Say He HIS?"
- Continuity: When Art goes to stop the guy from jumping off the block of ice the first time, you hear the sound of the gun cocking. In the next view we see the gun and the hammer is not cocked.
- Continuity: Ivan's pierced eye changes from his left to his right and back to his left in the scene where the FBI Officers discover his body.
- Continuity: When the scene with Perez on her way to the hospital ends, it shows Art sitting at the desk with the timer on 19.47. Later in that scene he walks back over to the desk and the timer is on 19.39 when about a minute of the scene had gone by.
- Continuity: During the flashback in which Jill is attacked by the man who "forgot" his jacket as she is leaving the clinic, she has to unlock the door at knife-point even though she never re-locks it when retrieving the jacket. The door's lock is a deadbolt type and no knob is present, so it wouldn't lock itself automatically.
- Continuity: In the beginning of the movie, during the autopsy, John's skull is seen having the minor rectangular piece removed. This, however, is not possible, as Lynn from Saw III removed the piece as part of his brain surgery.
- Revealing mistakes: When Rigg approaches the door to the classroom, in which the husband and wife have experienced their trap, the painted red '?' on the door is still wet.
- Continuity: When Rigg finds Jigsaw's last note for him in the desk drawer of the "FEEL WHAT I FEEL" room, it is first seen to have only one sentence: "Become the teacher and save a life." In a subsequent close-up, a second sentence appears: "Go back to where it all began."
- Audio/visual unsynchronized: On the Unrated Director's Cut DVD, Rigg pulls the last steel spike out of Morgan and Rex and drops it. However, the accompanying sound is that of a wooden rod landing on the floor.
>>> WARNING: Here Be Spoilers <<<
Goofs below here contain information that may give away important plot points. You may not want to read any further if you've not already seen this title.
- Plot holes: SPOILER: Art's second trap was the Spine Pincer, which was intended to slice through the back of his neck if he failed his test, but when he takes off his jacket (revealing the device) he bends his head and clearly shows that he can get his spine out of reach of the blades. The pincers have no extension, so Art really has no obligation and no reason to subject Eric and Hoffman to their torture.
- Incorrectly regarded as goofs: SPOILER: At the end of Saw III, when John died, he has no facial growth, and during his autopsy, stubble is clearly visible. Despite a person's death, it is very common for hair and beard growth to continue post-mortem.
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