Most probable reason is:
You happen to have multiple version of the same mod in your mod folder. It make the Civ5 modmanager go insane so
+Unsubscribe from all mods,
+delete the MODS folder,
and reinstall VP using the auto-installer
(In truth , you only need to unsubscribe from More Luxuries, Community Patch, and delete all the folder that have for name More Luxuries, Community patch, Community Balance Overhaul, ...)
=> After loading the mods, and before clicking on Single Player, you should see exactly 6 mods, numbered (1) (2) (3) (4) (5) (6a) in order
If there is not 6 mods, if they don't have the good number, or if they don't happear in the good order, the install is still broken and you will have bugs.