The problem you're describing suggests a failure with your master hard drive. Try swapping them.
If that still doesn't help, repeatedly press the F8 key after the POST/mobo splash screen. This will bring up Windows Advance Boot Options. Use the down/up arrow keys to navigate to "Restart on boot failure" (the wording may be different, depending on your version of Windows). By pressing the Enter key while this option is highlighted, you will turn off this feature.
When the Restart on boot failure feature is disabled, you will be taken to a BSOD with a STOP error (I.E. 0x0000000) if your system fails to boot Windows. Post this error message for further assistance.