I experienced this exact problem while trying to install the jaunty beta
to an asus 1000HE, from a flash drive of course.  Just as the original
poster described, ubiquity complains about the flash drive being
mounted.

I would like to add that the error message makes no sense.  It asks if
you would like to have the drive unmounted or not, but the buttons read
"go back or continue".  But, of course, it shouldn't be trying to
unmount the installation media in the first place.

** Tags added: beta jaunty

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ubiquity crashed with AssertionError in get_autopartition_choice()
https://bugs.launchpad.net/bugs/344277
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