I'm sorry, but I can't understand you entirely. The FSX Airport Scanner it's not a program we made, it's a freeware utility designed to find AFCAD duplicates for any airport, that can cause problems like missing jetways for example.
If the FSX Airport scanner finds a duplicate, it's usually safe to remove it. As long as you don't remove the LSGG AFCAD in the fsdreamteam\LSGG folder, or the default one, the airport should work normally.
It's not clear or not if you use AES, because if you do, it's possible the issue might have been caused by a problem installing it. In this case, you need to refer to the Aerosoft forum.
As I've said, missing Jetways can ONLY be caused by ANOTHER scenery in conflict OR by a problem installing AES (if you use it), nothing else can exclude a jetway in FSX.