No Gary,
that is not how it works. If you read the documentation you are not understanding it.
You have a theme and that theme has several menu locations.
Primary Menu
Top Bar Menu (Default)
vp guest menu items
vp subscriber menu items
Footer Menu
Mobile Menu
Top Mini (Left)
Top Mini (Right)
Primary for example appears below your logo, Top Bar Menu above your logo, Footer would appears in the footer (if used) and so on. Then you have few other locations that we don’t know where they should appear like that vp_guest_menu.
If in GeoDirectory > Design > Navigation you set the Primary location as the menu were you want the GD links to be added, the GD links would appear below the logo at the end of your current main menu.
If you selected the Top Bar Menu, the GD links would appear above your logo.
If you select vp_guest_menu, they would appear wherever that vp_guest_menu is intended to appear. I don’t know where that is, it looks like you don’t either, that’s why I’m suggesting that you ask to the theme author. He’ll know for sure.
There is no way to make the GD Links appear only on GD pages (if that is what you are trying to do).
If you tell me what you are trying to do, instead of telling me that something is not working based on assumptions, we might be able to help you more effectively.
Thanks