Boots fine, but won't Safe Boot

All of a sudden, I've been having two problems. The first one I've posted already, but will list here in case one has to do with the other.
The first problem is that I can't open any disk images. I repaired permissions, repaired disk (it was fine), got rid of the recommended extensions and caches and rebooted, tried another user login, nothing helps.
The new problem is that I tried doing a Safe Boot (hold down the shift key after the startup chime), and it hangs at the gray apple and spinning gear. Mind you, the computer boots just fine the normal way (no keys depressed during boot). Any ideas of what's going on?

Did you use Disk Utility from a backup/clone emergency boot drive?
How about Single User Mode and running fsck command to repair the drive?
Safe Boot sounds like it is unable to replay the journal file properly - or something - and that you have a dirty file system directory issue.
Or, a bad SHIFT KEY ;-( (unlikely, or bad USB cable connection).
Some of us have a policy of never using "delta" software updates, only using the combo update (standalone), and once in awhile, MacFixit/MacIntouch and others have recommended rerunning the combo update again to fix some "minor" problems.
I am a fan of using Applejack before any update to check the drive, delete caches, remove swap files, look for corrupt plists, after running fsck. And to never use the computer during or while it is being updated, which has been known to lead to problems.

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Thanks, tried that (and tried it with the CMOS battery removed), and it didn't solve the problem. I'm stumped. I've tried resetting the SMC, which also had no effect on the problem. If I try to zap the PRAM using the traditional four key chord, it will shutdown (with power light still on) but won't reboot. Same if I choose Restart form the Apple menu: it gets the job half done, but won't reboot. So it seems to be a very specific failure: something in the Restart sequence is hanging up, while the Start and Shutdown sequences work fine.
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