Hi, Yes. That is what I am saying. You assign the drive letter via the Windows installer.
Now, a couple of things about IDE drive assignments. First, "Master" and "Slave" are unfortunate names. The only distinction is which drive it is located where on the cable. "Master" and "slave" do not denote some "superior" position on the cable. It is simply a way to denote which drive is which. They could just as easily use "1" and "2", or "A" and "B". Otherwise master and slave are exactly the same from a usage point of view. Second, using pin configurations overrides cable position. Cable position is only used by the BIOS if you use the "Cable Select" or "cs" setting with the jumpers. With "cs" the BIOS uses cable position for determining which is which, with "master" assigned to the connector at the end of the cable, and "slave" to the one at the middle position.
The only thing you want to try to make sure of is that the boot partition is assigned the drive letter "C". Otherwise, things can get a little confusing with the boot partition being another drive letter. That will work just fine, but many software installers will automatically install to the "C" drive regardless of where the OS actually is located. That is bad programming, but there it is. You can make absolutely certain that the "C" partition is used by simply disconnecting the other hard drives before installing Windows. Regardless of where the hard connection for the remaining hard drive is connected, if there is only one hard drive to install to, it will get the "C" letter. After Windows is installed, just connect the other hard drives, and Windows will assign them other drive letters, and all will be fine.