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Fragment of a discussion from Talk:Macha
The dark knight armor was obviously made before her suicide.
About the Aer thing, is there actually anything in the story that says Dark Knight armor is modified Paladin armor? The player's dark knight skills replace paladin skills, but in the quest to switch to Dark Knight, you're collecting the pieces of Dark Knight armor stolen by the Fomors(IIRC, the story says it originally belonged to Humans), not modifying your existing Paladin suit.