If the SATA controller is integrated into your mobo chipset (for instance Intel 865/875), it will function just like a "normal" IDE controller.
If it's a separate card or embedded device (SiliconImage, Via, etc), or your chipset-based controller has a RAID mode and you're using it, you'll need to do the F6 thing.
Also the 865/875 boards' BIOSes have an option to address the IDE/SATA controllers in "Legacy" or "Enhanced" mode. Enhanced means both IDE and both SATA channels are enabled; Legacy means only two total channels are functional, and there's generally another option to specify which 2 of the 4 are active.
One more option in the BIOS should allow you to specify the order in which the disks are addressed...
Dumb question, you are dealing with XP or 2000...not 98/Me...right? I wouldn't expect 98 to address most SATA controllers correctly as the boot controller.
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