No when you leave the dungeon everthing happens as normal. Irenicus and Imoen are both taken away by cowled wizards.
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Imoen is not a plant. She has actually lost her soul. Have you played through BG? She was a thief after all. The shadow thief attack probably gave her the time she needed to get out of her cage.
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Everyone is entitled to their own opinion, I just don't have to listen.