I'm not sure I fully understand this question but if you want to find caches in the counties you're missing, (like Bonvillars, Cheseaux-Noréaz, Cheyres-Châbles, Corcelles-près-Concise, Cortaillod, Delley-Portalban, Gletterens, Grandson, Lac de Neuchâtel (FR), Lac de Neuchâtel (NE), Lac de Neuchâtel (VD), Montagny-près-Yverdon, Onnens (VD) and Yvonand for the linked checker) I would just use the multi-select in the MapCompare. Click on the little list-icon to the right of the counties in the cache location-filter here:
https://project-gc.com/Tools/MapCompare