For ex: Take a few flamethrowers, empty the fuel contents then restack the flamethrowers, rince and repeat.  Same with other weapons that have a base loadout when spawned/crafted. Been trying ways to change default ammo loadouts to no avail. Any help with this would be great! Thanks.

Support for minor duplication issues has been removed due to conflicts and unexpected functionality. If your server is low rate enough that this is an issue, then you likely don't really need them to stack.