This option is available in the premium version of the plugin.
Similarly to the Reset button exceptions you can add exceptions (e.g. filters and controls that you do not wish to be included) to the badges placed into the active filter collectors. Select such filters and controls in the Active badges exceptions multiselect, and their active badges will not be included into the active filters collectors added to the top of presets or product list.
Individual filter badges enabled via Show active filters setting will still work for filters added to active badges exceptions.