Continuity mistake: Towards the end of the episode whilst Buffy is fighting Caleb with the scythe, right after he says to her, "You're not slipping out of this fight, girl. Can't you see? You can't stop me. I can just keep going back for more. It's like being reborn," and throws her into a wall, the position of the scythe changes constantly between shots.
Audio problem: When Xander, Willow and Ampata meet up at The Bronze, the song the band is playing is at the point of a guitar solo. If you watch Oz (who has already been established as 'lead guitarist') on stage in the background; he's blatantly NOT playing that solo. The hand movements don't match up.
Other mistake: In the scene near the end when Faith is putting Joyce's lipstick on in the mirror and taunting her, it is obvious that the make-up department forgot to put Faith's tattoo on her upper arm. It's obvious if you watch back and forth between the mirror and the shot of Faith standing and turning, there is no evidence of a tattoo that has been established Faith has in the previous season.
Continuity mistake: When Glory challenges Dawn to name one person who can cope with life on earth, there is a close up of Dawn answering "Buffy". In this shot, the black mark (where she has been annointed) that is there before and after, has completely disappeared.
Plot hole: In 'Graduation Day pt 2' the Mayor has his vampires stand at the bottom of the steps leading out of the school to stop any escaping students. The thing is, all the parents managed to escape out the side exits. Since the Mayor was expecting all the students to try and run too, why didn't he have these exits covered?
Continuity mistake: Near the start of 'The Wish', the scene where Cordelia is talking to the Cordettes and meets Anya. During the close-ups of Harmony, Anya is standing to camera right of the brunette Cordette behind her. A few seconds later when the shot is further away Anya is standing camera left of the Cordette.
Visible crew/equipment: After Tara is found in the Janitor's closet and brought back to her room as Willow & Buffy come in, there is a mirror to the left of the door. It has a scarf draped over it to prevent it from reflecting things it shouldn't, but the bottom right corner is still exposed and in it you can see glimpses of the crew moving around behind the camera.
Factual error: After Buffy drags Xander down to the basement she locks the door and goes upstairs to find Dawn. When she locks the basement door, the handle is on the left side of the door and she turns the key to the right. In reality, a door with the handle on the left needs the key to be turned to the left to lock it. So Buffy did in fact unlock the door, not lock it.