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A few weeks ago I ran Malware Bytes on my HP Pavillion with XP media 2006, it found 8 trojans, I removed them and restarted and that was the end of that computer. It corrupted the boot sector and I had to format the drive and reinstall windows. I chalked it up to a virus having caused the corruption.
Now I just ran malwarebytes on my girlfriends dell insipron notebook with vista and it found 9 infections (5 registry values for an IE bug) and windows XP 2008 antivirus virus. I removed those, restarted it and SH*T!!!
Same problem! The computer will NOT boot all the way through, it gets into windows even sometimes and freezes on the desktop with the cursor spinning. It won't start in safe mode and it won't do "last good configuration"
have you tried booting to Windows Advanced Option and doing the Repair? You can also do a system restore in Vista's recovery environment. if you chose to do system restore, you'll probably have the viruses back.
There is no such antivirus that is 100% fool proof.