What is the Best Way to Clean Clear Aligners? Top Tips to Avoid Surprises

Written by Dr. Febin Mary George, BDS | Medically Reviewed by Dr. Zein El Hammouz, DDS, MFD/RCSI.

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Table of Contents

1. How to Clean Aligners at Home: Do’s and Dont’s

2. How to Clean Aligners On the Go: Best Hacks

3. Oral Hygiene: Best practices for your aligners and teeth

Your aligners need to be cleaned and taken care of just like any other dental appliance. When your aligners are in your mouth, they are exposed to saliva, food debris, and oral bacteria. Cleaning aligners routinely and thoroughly ensure that there is no plaque buildup and that your aligners remain clear and free of any unpleasant smell.

How to Clean Aligners at Home: Do’s and Dont’s

You should keep your clear aligners clean so that they remain virtually invisible. Stains or discolorations can make your clear aligners look dirty and indicate a lack of oral hygiene and cleanliness. To make your life easy, simply go through this list of do’s and don'ts so that you can devise your own best way to clean invisible aligners.

What You Should Do

Cleaning tablets

Cleaning tablets can be referred to as one of the best ways of cleaning aligners. These effervescent tablets are primarily composed of sodium bicarbonate, (commonly known as baking soda) and sodium sulfate. (1) Simply drop one tablet in a bowl of water and let your aligners soak in this solution for about 10 to 15 minutes. After that, you can take them out and rinse them in water before you put them on again. Before using the product, it is recommended to read the directions on the label.

Picture of a mouth cleaning set with all essential elements for a good mouth health, including a toothbrush, a towel and a cup of water.

While sodium bicarbonate, which is commonly known as baking soda, is one of the primary ingredients of cleaning tablets, it is not recommended to use it as a standalone compound to clean aligners. Being a mild abrasive, baking soda can damage your aligners when used as a DIY product for cleaning aligners.

Soft toothbrush

Using a soft toothbrush is a traditional yet effective way of cleaning your aligners. (2) Just brush your aligners gently under running water. Do not use toothpaste along with the toothbrush as the tiny abrasive particles within the toothpaste may damage the clear aligners.

What You Shouldn’t Do


Though mouthwash is an excellent oral cleaning aid, it may not be a great option for aligners. Colored mouthwash tends to stain your aligners so it is not recommended to use it for cleaning aligners.

Bottle of mouthwash with a warning sign over it, to warn about mouthwash use and possible risks.

Hot Water

Washing clear aligners with hot water can damage the plastic and cause warping resulting in a change in the shape.(3)


Using vinegar as a cleaning agent for clear aligners may not be the right decision due to its acidic nature. The quality of the aligners could be affected by the action of vinegar.

Baking soda

Baking soda is mildly abrasive in nature and therefore, is not a recommended DIY option for cleaning aligners.

Hydrogen peroxide

Hydrogen peroxide is a strong antibacterial agent and hence, not recommended to be used on clear aligners.

Colored or Scented Soaps

Colored soaps can leave stains on the clear aligners whereas scented soaps can leave a bitter taste in your mouth.

Aligners without protection

It is not a good idea to leave your aligners exposed or unprotected. There is a danger of losing your aligners. Moreover, aligners should be kept within their container when not in your mouth to avoid the growth of harmful germs on them.

How to Clean Aligners On the Go: Best Hacks

If you are someone for whom traveling is a part and parcel of your work life, you may need a couple of things to make sure that both your aligners and your teeth are clean on the go.

Travel Toothbrush and Toothpaste

A toothbrush and toothpaste (preferably a small-sized one) should be the first on your list. Brush your teeth after every meal and before placing your aligners back in your mouth. Do not forget to pack a separate soft toothbrush for your aligners.

Image of a toothbrush, a toothpaste tube and a toothbrush case as a sample of a toothbrush set.


While your toothbrush cleans the surfaces of your teeth, flossing helps in eliminating food remnants in the areas between your teeth.

Small Mirror

So you can appreciate your beautiful smile even when you have your clear aligners on! Those who find flossing difficult can make use of a mirror to see where exactly the floss needs to be passed through.

Bottle of water (if you can’t brush your teeth)

A bottle of water comes in handy when you have no water available for brushing your teeth. Just swish some water in your mouth to flush out any remaining food particles. You can use plain water for a quick rinse of your clear aligners.

Next Set of Aligners (if you’re traveling)

Never forget to pack the next set of aligners as you can switch to the next step during your travel period should the need arise.

Never place your aligners in a cup or glass as there are high chances of you losing them owing to their virtually invisible appearance. It is always wise to carry an extra case to keep your clear aligners.

Oral Hygiene: Best practices for your aligners and teeth


Just like your teeth, you should clean your clear aligners twice daily, soon after brushing your teeth.

Eating and Drinking

You may think your aligners need no cleaning because you take them off before eating food. But, that's not true! They should be cleaned to avoid the oral bacteria building up on the aligner surfaces. Always make sure to brush your teeth and clean your tongue after you eat or drink to avoid any stains on the aligners!

Image of a dirty clear aligner from Eon Aligner company, showing why it needs to be clean frequently.

Image showing a set of clean clear aligners from Eon Aligner company.

Use the Protective Case

You should keep your clear aligners in a clean protective case when you take them out from your teeth. Sticking to this habit allows your clear aligners to be clean and clear always. Also, you need not search for your aligners after every meal as you know for sure where you have kept them. You should wash your protective case once in about two weeks so that you can store your aligners in a hygienic way.

Picture depicting a clear aligners white case from Eon Aligner company.
ImageAn Eon Aligner protective case


As long as your aligners work hard on your teeth to bring them in the perfect alignment, you need to take care of them and maintain them in a clean and fresh state.

Cleaning your clear aligners with the help of effervescent cleaning tablets and a soft toothbrush is the most recommended approach to maintaining your clear aligners.

Though there are plenty of other home remedies available on the internet, do not try them out impulsively as they may contain harsh chemicals that may cause permanent damage to your aligners. If you want to know more about how to clean your aligners and which product to use, then don't hesitate to reach out to your nearest Eon Aligner provider. We are happy to help you!



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