If you open the BOS files in winzip you'll be able to extract everything so that they'll show up in the editor. You'll need to reapply the patch afterwards, and don't forget to use the 'use folder names' option to get the right directory structure.
There's a bug with the patch items which doesn't allow you to add them to inventories, but you can add the ammo to the quarter masters inventory by editing core/tables/campaign.txt and then opening up the bos.cam in the campaign editor in FOT Tools and re-importing the QM list.