For those just joining us, here is a workaround I posted a while back:

"One possible solution would be to convert the vfat volume to ntfs. This can be 
done if the volume in question is NOT a system or otherwise un-dismountable 
volume.
The command to do this, under windows xp, is:

convert x: /FS:NTFS /NoSecurity

where x is the drive letter of the volume."

One important addition is that the partition/volume should be as
defragmented as possible, or the performance of the new filesystem will
be terrible. A free utility that seems to work better than the internal
defragmenter is Defraggler from Piriform (http://www.defraggler.com/).
If there is too much data on that volume and defragmenting would be too
slow, check under the action menu for an advanced option to just
defragment the free space (even allowing fragmentation).

-- 
vfat : wubi 8.04.1-rev506 kernel upgrade fails
https://bugs.launchpad.net/bugs/252900
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