If you right-click and select "open with current settings" then yes, it will open with the floor plan layers, as that is what the "current settings" refers to - exactly what is current. If you have saved your section view with the correct layers, MVO's etc you can either open the view via Navigator, or double-click on the tab for the section view (if it is visible at the top of your screen) and it will open with saved view settings. Single click on tab opens with current settings also.
I'm so stuck in my ways I almost always use Navigator to open any view. At least you know what you're getting.