Continuity mistake: Near the end when Iris and Joe are talking, Iris sits with her elbow on the couch and her head against her hand. In the next shot, her forearm is resting on the couch, and her hand is hanging down, away from her head.
Continuity mistake: The explanation that Cisco draws about the endless cycle changes in between shots, not counting the added words "past", present", and "future" (which he could have written when off camera, not that it would make sense to do so since he already explained what was past, present, and future). Where the loop crosses itself is higher up as well as the "FF + TR" being different.
The Present - S3-E9
Continuity mistake: When The Flash reveals to Julian that he's Barry, he pulls back his cowl, leaving it around his neck. But in shots of Barry's back after Julian says his sister died, the cowl is gone. The cowl is around his neck in all the other shots.
Continuity mistake: When Barry and Kara get shot outside the bar, at first the spot of blood on Barry's shirt is bigger than when Iris and Mon-El later get to the scene. (00:34:00)