Archonia Points will not be used when your Box is automatically shipped (because we cannot know for certain if that is what you want at that time).
If you wish to use your Archonia Points for your box, you'll have to use the 'ship items now' button. Simply go to your box, go to the tab 'next shipment' and press the button 'ship items now'. Full explanation can be read here. After you've pressed the button, you'll get a checkbox that you can check if you wish to use your Archonia Points for your box.
IMPORTANT: If you press 'ship items now', your box will be closed and prepared for shipment. If you want to use your Archonia Points and have your box sent on your box day, press the button the day before your box day.