Hi,
Actually I don't understand what is the problem going on:
I have run three OS - Windows 98, Windows 2000, and Linux Mandrake 6.0 and I don't find any problem - accept when one of these OS crash - a bit headache, very hard to troubleshoot.

I also play with WinXP, and I found it has similiarity with Windows Me and WIndows 2000.

I just formated my PC running Linux Mandrake 6.0 with WIndows 98.

Now I am running Windows Me and Linux Red Hat 8.0 (latest) - no problem.

What I know is never choose auto-mounting as it will auto-remove your existing OS. If I am not mistaken, there are 3 choice - Automatic, Custom, Expert Mode to set up LInux Mandrake 6.0. Choose Custom or Expert Mode where you have to setup root and other directories according our requirement and so on. Make sure you choose the correct hardisk hda or hdb (for ide), then set up partitian for root (/), boot (/boot), swap (/swap), and so on depends on whether you are going to use as server, home or workstation.

This is not applicable to Linux Suse 6.0 as it doesn't support Gnub previously - something like System Commander where it allows you to choose multiple OS booting. I haven't try the new version of Linux Suse - no tiime. Maybe any one can share the differences between different Linux