You can disconnect the external and rename the second internal to G: If the file structure stays the same as I understand it in your initial post, you won't need to rebuild at all. If you need to use your external because of a problem, you will have to rename the internal and assign the G: back to the external.
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Test machine:
Vista Home Premium / Toshiba Satelitte X205 / 2.0GHz Core2 Duo / 2GB memory / 2x NVIDIA GeForce 8600M GT
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