Time Machine is very slow after I restored my Mac from a backup

My computer went in for repair because of a damaged logic board. Upon it's return the hard drive was blank so I restored all my data from a Time Machine back up. Everything seems to work fine except for Time Machine.
It is unbelievably slow. It takes an hour to back up 50 megabytes.
I have checked Activity Monitor and the process 'backupd' rapidly fluctuates between 20-100% CPU usage.
The behavior of Time Machine seems odd as well. Backing up small amounts of data minutes apart. e.g. It will back up 100mb, then a few minutes later back up another 100mb or so. I realize things run in the back ground but this goes on for hours and hours even if the computer is not being used. I have left the computer on overnight to find it still backing up the next morning.
Also, occassionally it will tell me that it is preparing 30,000+ files (which takes a good 10-15 mins whereas it used to take a few seconds) and only back up 10mb. This never happened before. Again I know, 30,000 small files *could* equate to 10mb but the bahvior just seems off to me.
I have been backing up my MBP plus 2 other computers to a Western Digital My Book II 4TB drive successfully (and quickly) for about 3 or 4 months. The other computers still back up quickly to the drive.
I have found solutions saying to quit Finder while backing up and add your back up drive to Spotlight's Privacy list etc. Nothing has worked for me and I would like to find a real solution.
Thanks in advance.

Ok, thanks.
The preferences file might be damaged;  try a "full reset" of Time Machine, per #A4 in Time Machine - Troubleshooting.It's a long shot, but quick and easy.
Download and install the "combo" update, per Installing the ''combo'' update and/or Reinstalling OSX. 
If that doesn't help, consider reinstalling OSX (that won't disturb anything else).

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      [killed] com.apple.cmfsyncagent.plist
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      [killed] com.apple.EscrowSecurityAlert.plist
      [killed] com.apple.icloud.fmfd.plist
      [killed] com.apple.Maps.pushdaemon.plist
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      [killed] com.apple.printtool.agent.plist
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      [killed] com.apple.telephonyutilities.callservicesd.plist
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      [killed] com.apple.awdd.plist
      [killed] com.apple.ctkd.plist
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      [killed] com.apple.icloud.findmydeviced.plist
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      [killed] com.apple.installd.plist
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      [killed] com.apple.periodic-weekly.plist
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      [killed] com.apple.tccd.system.plist
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