I had a hitachi 46 that i got into modeB and flashed in windows no prob on my 8237 chipset, but everytime I try to boot to windows with my 59dj in modeB, I get a windows bluescreen before the flashing bar boot screen. Gonna try Safemode next time I open the 360.
Assuming your bios recognizes the sata drive, and windows has the sata drivers already installed from your previous flash jobs, and that its not showing up in the hardware tab where you can poplulate the volume, I would look next to the IDE ATA/ATAPI CONTROLLERS dev manager tab and check that the driver hasnt reverted back since your last attempt.
I read a lot of peeps use "via pata/sata ide package v1.60a" for that drive. or "via v-raid drivers v5.40a"
( this reply just meant to stir up some ideas, not neces. solve the issue)