After some communication with the support team the following solved the
issue for me:

u1sdtool -q
rm -rf ~/.local/share/ubuntuone
u1sdtool -c

If you are trying to sync folders outside your ~/Ubuntu One folder
please open the Ubuntu One Control Panel, click on the "Cloud Folders"
tab and make sure that the folders you want to sync are checked there.

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https://bugs.launchpad.net/bugs/872080

Title:
  ubuntuone-syncd takes 100% of cpu

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