Sounds messy... First when you re-create RAID 1 using IDA CD did you initialize the VD? I hope you didn't because if you did, then all data is wiped-out already.
Now let's try this. Connect only Drive 1 and boot the system. The RAID will be in Degraded state, but see if it can boot to OS. If it can't boot, disconnect Drive 1 and connect Drive 2, and then boot again.
If both fail, then the last chance is to perform a Recovery Install. You'll need to load the latest ESRT2 driver during installation. If your old Windows partition can be detected, you may still get your data back. Again, do it with only one drive connected. If you're lucky enough to get your data back, you can rebuild later.
The reason of doing it is that in RAID 1, if one drive fails, you'll still be able to get your data from the other drive. However in your case completing the rebuild in Ctrl-E utility is not a good sign, because the data on the good drive might be overwritten, if disk 1 is having some intermittent error. Anyway, let's give it a try.
Again, when ESRT2 is enabled, the disks are not seen by BIOS because they're handled by the ESRT2 OpROM. If you change to AHCI or Enhanced mode, you'll have to reboot the system so that the BIOS can detect the drives correctly. And I wouldn't suggest using the drivers on the IDA CD, because they haven't been updated for quite a while. Always go to http://downloadcenter.intel.com to get latest drivers.