After the first couple of found errors, I thought it prompts you if you want to fix them automatically. It's been a while though, so I could be wrong.
If nothing else, use the F8 key on start up to get to the boot menu, and then choose command prompt and run scandisk with these switches:
/surface /autofix
This will run it without you having to be there.
A concern I have is that once a drive starts to make bad sectors, it usually makes more. Unless they are "software" bad spots from windows crashes, real physical bad spots on a drive is a bad thing. Some of the hard drive makers diagnostics can test for bad sectors and remove them so windows doesn't use them again. But you will still need to run scandisk to make windows happy. If they are soft errors, a full format usually will clean them up. I'd be considering a new drive if possible, and then after everything is copied over, running the drive diagnostics on the old drive, and then trying to rma the drive.