How to Prevent Aligners from Staining or Smelling Over Time

March 4, 2025

Your clear aligners aren’t just working hard to straighten your teeth—they’re also meant to stay invisible while doing it. But here’s the thing: if you’re not careful, they can start looking cloudy, stained, or even develop an unpleasant odor over time. And let’s be honest, no one wants that.

Would you want to keep wearing aligners that are yellowed and smelly? Probably not.

The good news is that preventing stains and odors is simple with the right habits. Our dentist in Birmingham, AL, shares essential tips to keep your aligners clear and fresh—just as they should be.

How to Keep Your Clear Aligners Stain-Free and Fresh

1. Rinse Aligners Every Time You Remove Them

Every time you take out your Angel™ aligners, rinse them under lukewarm water. This washes away saliva and bacteria, preventing buildup that can cause odors and discoloration. Avoid hot water, as it can warp the plastic and affect the fit of your aligners.

Keeping your aligners hydrated also prevents dryness, which can lead to stains and bad smells over time. A simple rinse ensures your trays stay fresh and comfortable throughout the day.

2. Brush Your Teeth Before Reinserting Aligners

Your aligners are only as clean as your teeth! Any leftover food particles get trapped under the trays, leading to plaque buildup, bad breath, and even discoloration.  

Brushing and flossing before reinserting your aligners prevents bacteria from multiplying and keeps your smile looking (and smelling) fresh.  

Skipping this step can cause aligners to become cloudy and contribute to oral health issues. Make it a habit to brush after every meal and snack before reinserting your aligners.

3. Use a Clear, Gentle Soap for Cleaning

Toothpaste is great for your teeth but is too abrasive for clear aligners. Many contain gritty particles that can leave tiny scratches on the surface, creating a perfect hiding spot for bacteria and stains. Instead, gently scrub your aligners with a mild, clear liquid soap and a soft toothbrush. This method removes plaque and odor-causing bacteria without damaging the plastic. Always rinse thoroughly to avoid any soapy residue altering the taste of your aligners.

4. Soak Aligners Daily in an Aligner Cleaner

A daily soak helps break down bacteria and plaque that regular rinsing can’t fully remove. Using aligner-safe cleaners keeps your trays clear, fresh, and free of lingering odors.  

Let them soak for about 15-20 minutes while you brush your teeth, ensuring a deep clean without harsh chemicals. Rinse thoroughly before putting them back in, as the leftover solution can cause an unpleasant taste or irritation.

5. Avoid Drinking Coffee, Tea, or Wine with Aligners In

Dark-colored beverages like coffee, tea, soda, and wine are notorious for staining aligners, leaving them with a yellowish or brown tint. Since aligners trap liquid against your teeth, these drinks can also increase your risk of cavities.  

If you can’t go without your morning coffee, take your aligners out before drinking—and always rinse your mouth or brush your teeth before reinserting them. This prevents stains from setting in and keeps your aligners invisible as intended.

6. Never Use Mouthwash to Clean Your Aligners

Most mouthwashes contain alcohol and artificial dyes, which can dry out, weaken, or stain your aligners. Instead of keeping them fresh, these ingredients make them brittle and discolored over time.  

If you want to freshen your breath before returning your aligners, opt for a clear, alcohol-free mouthwash and rinse with water afterward. This keeps your aligners from absorbing any chemicals that could impact their durability.

7. Store Aligners in Their Case When Not in Use

Leaving your aligners exposed on a counter, napkin, or in your pocket invites bacteria, dust, and even pet hair to cling to them. Worse, it increases the risk of accidentally throwing them away or misplacing them.  

Always store your aligners in a clean, ventilated case whenever they’re not in your mouth. This prevents contamination, warping, and unnecessary exposure to germs while ensuring they’re protected and ready for your next wear.

8. Clean Aligners Before Bed to Remove Buildup

After a full day of wear, your aligners have collected plaque, bacteria, and saliva, which can lead to bad breath and discoloration if not cleaned properly.  

Before bed, brush them with gentle soap and a soft toothbrush, then rinse thoroughly. This removes buildup, prevents odors, and keeps your trays fresh for the next day.  

Making nighttime cleaning part of your routine ensures you start every morning with clean, clear aligners.

9. Avoid Smoking or Vaping While Wearing Aligners

Smoking and vaping expose your aligners to tobacco, nicotine, and other chemicals, leading to stubborn yellow stains and persistent odors. These stains are difficult to remove and can make your aligners look dirty even when clean.  

If you smoke, remove your aligners beforehand and rinse your mouth afterward to avoid trapping harmful chemicals against your teeth. Quitting smoking benefits not just your aligners but also your overall oral and general health.

10. Rotate Between Two Cases to Keep Them Clean

Your aligner case can also become a breeding ground for bacteria if not cleaned regularly. Rotating between two cases allows you to use one while washing the other, reducing contamination and buildup.

Wash your case with soap and water daily to remove germs and odors. This simple habit helps keep your aligners hygienic and fresh whenever you take them out.

Do You Need More Tips from Our Dentist in Birmingham, AL?

Maintaining the clarity and freshness of your clear aligners is key to ensuring your orthodontic treatment stays on track and your smile remains confident. Clean aligners not only look better but also fit more comfortably, preventing plaque buildup, staining, and unwanted odors.  

By following the tips outlined above, you can keep your aligners discreet, hygienic, and odor-free while avoiding issues like bacterial growth or discoloration. Keeping your aligners clean helps them stay clear, fresh, and effective throughout your treatment.  

At Dyer Orthodontics, we provide expert care and guidance so you get the best results. Whether you’re just getting started or need advice on aligner care, our team is here to help. Book a free consultation today to keep your smile on track!