Best Invisalign treatment in Kovilambakkam How do I clean Invisalign? You should clean your Invisalign trays each day, starting by brushing your teeth and the Invisalign trays each morning. If you eat a highly acidic or staining food, you may want to clean the trays again or rinse the trays in clean water. Each tray is worn for 1-2 weeks at a time. You can also clean trays with a retainer cleansing solution