I finally got it to work. After endless software, bios, firmware, etc updates. What I ended up noticing is that the drives that were not working were partitioned and formatted after windows was booted using another hard drive. I was trying to backup my stuff from my old HD before installing windows on the new one.
It appears that computer management does the partitions differently than the utility when installing windows. Computer management seems to leave only 1mb of unpartitioned space when making the full capacity of the drive a single partition. When I deleted the partition and then made a new one with the windows installation utility, it left 8MB of space free and then the drive worked like a charm.