Also, it's important to remember that Lelouch wants a revolution, not a reform. The Knight of One is part of what he wants to destroy. Because he wants a revolution, Nunnally as the Governor General makes things extremely tricky for him. I agree that his surprise is more at the fact that Suzaku would try something like that. Suzaku always catches Lelouch on the blind side, which is actually fascinating to watch. XD
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