I had the same problem also I did not want to lose any off my data on my storage hard drive. And to format the drive that has the data on it you will lose everything.
I have three hard drive on my system one with storage and two with operating system one Vista and the other XP.
Vista did not want to recognize the other hard drives untill I installed the motherboard drivers for raid and Sata it was not easy.
Vista has a mind off its own: It does not take all drivers or software. When this system goes on the market I would have to get all new software.
My secondary hard drive is being recognised but it does not appear to be formatted any longer. It has worked perfectly fine up until now but for some reason I cannot access any of the information on it. Would I be able to format the hard drive again to get the data or am i completely screwed?