I am using Graphene child theme. I was previously using Coraline and the same issue began. When I click onto a page on my site the url changes to the correct url but the page does not change, it stays as the homepage.
I am using Permalinks Fix and also Custom Permalinks plugin. I use /%postname%.html as my permalinks structure, and edit these for each page.
My site is only on local server currently so can't provide a link.