Page links not appearing after upgrading to 4.5

I have always made reasonable use of the page.module functionality. However since upgrading to 4.5 I seem to no longer have any of the links to the pages in the main navigation menu. Is there a way to get them back ot a module to add them back as they are veru urgently needed and I don't want to add them in a seperate block if possible as it would make navigation for people unnecessarily difficult.