I replaced my motherboard and re-installed Windows 10 Pro.  I installed Windows Repair 3.9.32 and when I ran the Pre-Scan I got the following:
 ┌────────────────────────────────────────────────────────────────────────────────┐
│ Tweaking.com - Windows Repair v3.9.32 - Pre-Scan
│ Computer: DOC (Windows 10 Pro 10.0.15063.332 ) (64-bit)
│ [Started Scan - 06/03/2017 14:11:31]
└────────────────────────────────────────────────────────────────────────────────┘
┌────────────────────────────────────────────────────────────────────────────────┐
│ Scanning Windows Packages Files.
│ Started at (06/03/2017 14:11:31)
│ 
0 Combined Problems were found with the packages files, these files need to be replaced (These mainly only effect installing Windows Updates.)
│ The SFC (System File Checker) doesn't scan and replace some of these files, so you may need to replace them manually.
│ 
│ THESE FILES DO NOT KEEP THE REPAIRS FROM WORKING; YOU MAY STILL RUN THE REPAIRS IN THE PROGRAM.
│ 
│ Files Checked & Verified: 3,634
│ 
│ Done Scanning Windows Packages Files.(06/03/2017 14:12:31)[/color]
└────────────────────────────────────────────────────────────────────────────────┘
┌────────────────────────────────────────────────────────────────────────────────┐
│ Scanning Reparse Points.
│ Started at (06/03/2017 14:12:31)
│ 
│ Reparse Points are OK!.
│ 
│ Files & Folders Searched: 192,164
│ Reparse Points Found: 60
│ 
│ Done Scanning Reparse Points.(06/03/2017 14:12:36)
└────────────────────────────────────────────────────────────────────────────────┘
┌────────────────────────────────────────────────────────────────────────────────┐
│ Checking Environment Variables.
│ Started at (06/03/2017 14:12:36)
│ 
│ No problems were found with the Environment Variables.
│ 
│ Done Checking Environment Variables. (06/03/2017 14:12:36)
└────────────────────────────────────────────────────────────────────────────────┘
┌────────────────────────────────────────────────────────────────────────────────┐
│ [Finished Scan - 06/03/2017 14:12:36]
│ 
│ 
-  Scan Complete - Problems Found!
 
│ 
│ 
-  You can use the Repair Reparse Points or Repair Environment Variables tools at the bottom of this Window if needed.
 
│ 
│ 
-  While problems have been found, you can still run the repairs in the program.
 
│ 
-  But for the best results it is recommended to fix the problems reported in this scan if possible.
 
└────────────────────────────────────────────────────────────────────────────────┘
It looks like the Pre-Scan detected errors "0 Combined Problems were found with the packages files, these files need to be replaced (These mainly only effect installing Windows Updates.)" but there is not a list of problems.  I have run "dism online cleanup-image restorehealth" and it came back clean.  I am not sure if this is a problem with the Pre-Scan or if I actually have a system problem.
I have run the repairs twice and nothing seems to be amiss but the pre-scan still shows the same issues.
Any thoughts would be welcome.