Some editorial rambling and rant, or jump to the end for some ideas.
PC motherboards have BIOS support for 3TB or you split it up which you could easily have done and use the first 100GB (more than enough) for the OS, and use the rest for whatever you want.
you don't need to bother with Boot Camp Assistant or want to (unless using the OS X drive or using XP).
Good review of 3TB drives came out Monday.
http://www.xbitlabs.com/articles/storage/display/3tb-hdd.html
Did you insure the drive was NOT GPT (Apple GUID)?
A good idea is to strip a drive of all partitioning with WD Lifeguard (from within Windows).
For OS, an SSD 80GB is fine. Use mechanical drive for data etc.
GPT booting in Windows is being added for X68 boards to support UEFI and Sandy Bridge, but Apple uses a proprietary version of UEFI and don't expect to see EFI firmware updates.
Other threads have taught me that the Apple Pro RAID card's firmware doesn't support 3TB drives, and has trouble there, so I think they have a lot of work on their hands with 3TB already.
UEFI does have "some" support, very limited, with 64-bit Vista SP1 and later, but not on Macs, I think Itanium and Windows Server 2008.
I wish Apple Disk Utility and Boot Camp Assistant would be rolled into one utility, much easier, but DU isn't useful - At least Paragon NTFS seems to be better and closer to Microsoft NTFS 3.1 standard, but always best to let Windows do the formatting.
And Paragon's Hard Disk Manager 2011 Suite has a lot of features and tools rolled in, and Boot Camp support.
stripe Mirror 0
RAID0 = stripe
RAID1 = mirror
http://www.acnc.com/040101.html
I've never seen drives pre-formatted except when bought from OWC. And that was wrong also and wasn't GUID.
http://www.microsoft.com/whdc/device/storage/GPT-on-x64.mspx
http://www.microsoft.com/whdc/archive/gpt-64bit.mspx
http://www.microsoft.com/whdc/device/storage/gpt_faq.mspx
http://developer.apple.com/library/mac/#technotes/tn2006/tn2166.html
IF (big if) our Intel based system supported Intel RAID at the motherboard....
This document provides a step by step guide to install an operating system into GPT Disk on Intel® Hardware RAID, under uEFI environment.
http://www.intel.com/support/motherboards/server/sb/CS-031158.htm
http://www.uefi.org/home/
Ps: Paragon 3TB boot loader is for XP.
http://www.geek.com/articles/chips/paragon-gpt-loader-lets-3tb-drives-work-under -windows-xp-2010113/
*WD Advanced Format Hard Drive with a Windows*
If your operating system is either Windows 7 or Vista, WD recommends using the latest Intel driver version 9.6 or later for maximum performance in all situations. Please visit Intel for the latest driver downloads.
http://www.wdc.com/global/products/features/?id=7
*Intel® Rapid Storage Technology (Intel® RST)*
+Are 4k sector disks supported?+
If you try to install the operating system on a 4k sector disk with a driver older than Intel® Rapid Storage Technology version 9.6, the installation process may not complete successfully.
http://www.intel.com/support/chipsets/imsm/sb/CS-031502.htm
March 2010
You probably want to load Intel driver during install phase when you have the option. Which is 10.1 as of Dec 2010
http://www.intel.com/p/en_US/support/highlights/chpsts/imsm