Normally, one would expect to see the Windows drive on Sata 0, but I don't think it really matters that it's not.
Initializing the drive means it's asking for it to be partitioned and formatted, but the puzzling thing is why did it lose its partition in the first place?
Was the partition on Drive 0 a logical partition?
I'm off to do some investigating.
I'm back, you may find this of use: Troubleshooting Disk Management