I have a different motherboard, Gigabyte GA-Z68XP-UD3 but I noticed the same behavior you explained with the Intel based SATA ports. Under Windows 7 I can hot swap (provided I don't install the Intel Matrix Driver) by using the safely remove hardware tool. But under OS X Lion same thing you...
Just thought I'd add my $0.02 - Updated my Z68XP-UD3 + Radeon HD 6870 via Apple Software Update (after backing up like crazy of course) worked flawlessly, no tweaking required.
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