Hey,
It has been noted before on this forum that user information is not stored in the appstack. So Appdata of the user and HKCU is not recorded and information in these 2 locations will not be in the appstack.
You could try adding it to the mandatory profile or adding it to the C:\Programdata folder.
Otherwise you will need to use either GPO, UEM or the .bat files in the root of the appstack to execute a copy command from the file to the APPDATA folder.