This bug has been fixed in hardy, in grub version 0.97-29ubuntu7 and
above:
grub (0.97-29ubuntu7) hardy; urgency=low
* debian/update-grub: use ucf to record changes to the autogenerated
kernel list
It is still advisable that boot options for other operating systems such
as Windows be added outside the "automagic kernels list" markers, but
going forward users will receive a debconf warning from update-grub if
the update will overwrite local changes.
** Changed in: grub (Ubuntu)
Status: New => Fix Released
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Kernel update hoses hand-edited menu.lst
https://bugs.launchpad.net/bugs/75712
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