Yes, the persistence mode is exactly that; it maintains the configuration until it's changed, as it saves the guidelines in the user's savegame.
But don't worry, I'll create a flexible mode with presets where all the settings are pre-configured in the plugin parameters and set universally, allowing you to modify exceptions directly in the map or enemy notetags.
Thank you for the suggestion and all the support; the modifications should be ready in a few days.