Trojan shut my windows

Did you set the slave drive to master and the corrupt drive to slave? If you can get on the internet with that drive, I would first try doing an online scan and making sure it scans both drives. Then see it you can run Superantispyware and MalwareBytes, again making sure that both drives are scanned.

You can go to Bitscan link: agree to the license and then select Scan. DO NOT CHANGE THE OPTIONS TO SHOW ALL FILES SCANNED. That will make your logs huge and we don't need to see clean files. Once Bitdefender completes the scan:

Click-on the Detected Problems tab. Then select Click here to export the scan report

When the window comes up to save the report, change the Save as type: box to Text (Tab Delimited) (*.txt) and then in the File name box enter change to bdscan then click save. This will save a file named bdscan.txt in whatever folder you are currently in when you save the file (take notice of where you are at so you can find it later). This bdcan.txt file will actually contain HTML code that we can easily view later while reviewing your log. All we have to do is rename the file to bdscan.html.