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windows should be installed in the first partition for one reason : it's just easier that way. windows doesn't like sharing a hd - and will attempt to erase anything already on the drive. so, get windows on first, then partition, then install linux.
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isajera how do you conclude that windows partitioning was the problem from the kernel panic message.
If he installed linux followed by windows windows would have wiped or rewritten his mbr made by linux deleting lilo assuming default lilo install or unless he booted from diskette
Installing linux on system first followed by linux without a fat partition first existing would have require fdisking again with windows version. because in order to install window it must start within the first 1024 cylinders of first hdd
but if it is true that you want to have both windows and linux on one hd
then yes you would need to perhaps fdisk you hdd with windows version (hint only fat fdisk what you will need for windows) If you have a 10gig hd and need only 5gig then fdisk only 5gigs worth. then of course format it. That was windows won't ever mess with your other portion of hdd.
next install windows
next install linux on the rest of hdd not already assigned to windows (be certain on formating the partitions created for linux)
during install say yes to create boot diskette along with just putting lilo on hd.
oops one more thing if it's a scsi then you must tell linux during install that what it is if not it will assume regular ide.