IMac freezes during 10.10.1 install, needs full-on Time Machine Restore.

I failed to use Disk Utility to Verify/Repair permissions before the 10.10 -> 10.10.1 upgrade on a 27" iMac (early 2009, first 27").
The computer restarts and partway through the grey-screen with progress bar, the iMac simply, stops.
I eventually have to power down, and always the same stop.
I boot into the Recovery area, where Disk Utility Repair Permissions first said the drive was un-fixable, then ran fine and made repairs and said it was fine.
I then had to restore the entire machine from Time Machine since it WOULD NOT recover enough to boot.
Time Machine restore was amazing.  Many hours, but it restored the iMac to the previous state from the day before, including what e-mails were open.
I figured all the diagnostics had "shaken up" the drive enough to try 10.10.1 again, but the same result.  Partway through grey-screen with progress bar, permanent freeze.
Needed 2nd Time Machine restore.
Now I'm afraid to try again.
Is that a dead sector on the hard drive?  On a system file that's never used?  So confusing.  I wish a scan could find it and mark it as unusable.
5 year old Mac drive though.  Could be getting Tired.
Thoughts welcome.

I boot into the Recovery area, where Disk Utility Repair Permissions first said the drive was un-fixable, then ran fine and made repairs and said it was fine.
To be clear, use Disk Utility's Repair Disk function, not Repair Disk Permissions. Once it finishes, back up that disk's contents to another device, preferably two or more, and then discard it. If you are concerned about securing its contents, physically destroy it first.
A permanent repair for hard disk corruption does not exist. Firmware contained within the hard disk drive already automatically maps bad sectors "unusable" as you desire. The problem is that as a disk ages and is subject to the inevitable environmental abuse that occurs with all consumer electronics, the number of bad sectors will increase exponentially with time. Replace it.

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