I had the same problem in OneNote 2013 and 2010. In Windows 10, I could resolve the problem by using built-in OneNote for Windows 10 - it's very slow but at least it is syncing right with my notebook in OneDrive. But I couldn't find any way to use OneNote (free version) in Windows 7 because the new OneNote software requires user to login office 365. I thought about buying OneNote 2016 if I can, but there is no option to do that in Microsoft store.