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I agree with Toad. I would put Windows on your primary HDD and install it first. Depending on your version of Windows, I would then format the space that you want to use for Linux (format through Disk Managment as "free space" or use fdisk and make it "unallocated").
Then install Linux and depending on the flavor, you can allow Linux's GUI to install to "free space" or you will have to use a tool such as fdisk and I think that Slackware uses cdisk to create your home, root, and swap partitions for Linux. (*tip* - Red Hat and Mandrake both offer GUI installations | Slackware and Gentoo along with a few other popular ones are command line install for the most part)
The reason that I would install in the Windows, then Linux order is because Grub or LiLo (Linux boot loaders) are windows friendly, which means that you can pick if you want to load Windows or Linux without much hassel. If you installed Linux then Windows, Windows would overwrite your Linux boot and you would have to use a floppy to boot to Linux untill you manually fixed the boot.ini file in Windows.
I hope you find this information helpful.
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Shakie
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