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GIP!

hwcarnage made me another pretty!
Well of course he wanted to take over... he outranks Shep, and I'm sure he's more experienced. Maybe he felt like Sam did at the beginning of SG1... that she should have been on that first mission to Abydos, dammit, and she's not going to get left behind again. I think his attitude about wanting to change things is just part of being military-- sometimes a comrade falls and you need to step in. I don't think it's in his character to just keep someone's seat warm, like she was expecting. I think she does trust Sheppard, and she wants to keep him as the ranking military officer on Atlantis because he cooperates with her; he doesn't try to take over. That's good from Lizzie's point of view, but is it really the best thing for the city?

Basically, I think Caldwell tried to reach out to her in Conversion (whether or not he did a good job is a matter of debate ;)) and she pushed him away. And I think, as a trained and skilled negotiator, she would know better. Caldwell's not a fave character or anything, but I felt sympathetic for him after watching this episode.