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Black Magic vs. White Magic: Dark!Willow's magic draws its strength from her rage. The magic she steals from Giles comes from love.
Book Ends / Rule of Symbolism: Buffy starts Season 6 by clawing her way out of her grave into the night, beginning a year-long Heroic BSOD. She ends the season climbing out of her hole into the light, having rediscovered the value of living.
Continuity Nod: Willow brings up the argument she had with Giles in "Flooded". Buffy tells Giles of the events of "Normal Again". Kingman's Bluff is the same place Angel tried to kill himself in the Season 3 episode "Amends".
"You're such a hypocrite. Waltzing in here with your borrowed magicks. So you can tell me what? Magic's bad? Behave? Be a good girl? (chuckles) Well, I ... I don't think you're in any position to be telling me what to do." (camera pans up to show Giles pinned to the ceiling)
Rule of Symbolism: One of the Trials involves Spike being covered in scarab beetles, which were sacred to the ancient Egyptians who associated it with the sun which brought renewal, rebirth, and more importantly resurrection. During mummification a stone scarab was placed over the heart of the mummy to ensure the eternal endurance of the human soul as the person made the journey into the Afterworld.
Ropes can be seen holding up the satanic church spire as it thrusts out of the ground.
And in the scene where Xander almost falls into the hole in the ground, you can clearly see someone holding Nicholas Brendon by the belt.
Suspiciously Apropos Music: As Buffy and Dawn climb out of the grave and look over the now-saved world, the music playing is a sung version of The Prayer of Saint Francis of Assissi, Patron Saint of, among other things, the environment. Just as the song/prayer ends with "dying to be born to eternal life," Spike is given back his immortal soul.
Tempting Fate: Anya telling Dark!Willow her mind control mojo won't work on her.
Tension-Cutting Laughter: Buffy lists all the ways the Scoobies have stuffed up since he left, ending with "And I'm sleeping with Spike." She then looks nervous as she waits for Giles to tear strips off her...only for Giles to burst into laughter. After a moment Buffy can't help but join him.
That Man Is Dead: When Xander tries to talk down Willow and uses her name, she snaps, "Don't call me that!"