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There's a lot of things about Cadance and Shining Armor that never quite made sense: their sudden appearance before the Royal Wedding; their suspiciously convenient suitability as rulers of the Crystal Empire; their oddly abbreviated pregnancy; and even their quick change of heart after Spike asked them to forgive Thorax.
Twilight Sparkle knows exactly how deep that conspiracy goes — she was there in the beginning, when her hive's queen created Shining. And she wasn't happy about it.