Honestly I don’t see Amazon coming out with another plugin, though the tides could change and it could happen, but for now you will have to go back to CS6 and use the Kindle for InDesign plug-in. If converting an ePub with KindleGen or Kindle Previewer can’t do what you are wanting, you will probably need to consult an eBook developer to help you get the results you are looking for in your Kindle conversion.