11 Proven Ways to Stop Mold on Microgreens Unless They’re Beautiful Root Hairs

The second most common question in our inbox is about mold on microgreens.

Pictures are almost always attached to those emails and a panicked question (at least, that’s how I read them).

“Is that mold on my microgreens? Do I have to throw them away?”

Luckily, almost always, the answer is “No.”

In fact, 85% of the time, the white fuzzy material around the microgreens isn’t mold but are root hairs.

Beautiful, white, fuzzy root hairs grow out of the root radicle and search for moisture and nutrients.

Sometimes, there’s both. Like in the tray of borage seeds, we grew, shown below.

mold on microgreens with root hairs

In the close-up photo, you can see the oddly-shaped borage seed. A fuzzy mass of white mold is growing on both the seed and the soil.

The borage’s root radicle is searching for soil and is covered in another white mass of little individual root hairs.

Is That Mold on Microgreens or Microgreen Root Hairs

home microgreens sells seeds

FREE Home Microgreens Grow course that teaches you the basics of growing microgreens in your home! There are 12 video lessons (over 120 minutes), downloads, and more written information and tips!

We want to save you some time and worry right off the bat.

Most of the time, the white fuzzy’s you see are just root hairs. Especially if you’re growing the more common microgreens like broccoli, kale, cabbage, or radishes. 

The smooth, hard-shelled seeds like those rarely become moldy. There can be exceptions; usually, the problem isn’t the seed. We’ll discuss these problems more later on in the article. 

Listen to an Audio Version of the Article

We don’t just read the article word for word in the audio version; it’s a stand on its own piece of content that includes more details on the topic. These can include more tips, opinions, details, data, and information on this and related topics. 

The Microgreens Podcast Episode 014

Microgreens Seeds Susceptible To Mold Growth

We commonly see mold form on seeds with one or more of these characteristics, softer shells, a rough surface, or soaked before planting.

These include microgreen seeds like sunflowers, peas, cilantro, and borage. We also think that the damping-off disease in our Swiss chard and beets is caused by spores attached to their seeds’ porous and rough surfaces.

Is It Called Mold or Fungus?

We didn’t know either, but we found both are technically correct after some research. Though calling it mold is more precise.

Mold is a type of fungus that grows in the form of threads called hyphae. Many species of molds show a diverse, outward appearance.

For some reason, I like the word fungus better, but mold it is!

What You Think Is Mold On Microgreens Could Be Root Hairs

Of all the photos sent to me asking if there’s mold on their microgreens, only about 15% are actually moldy microgreens.

The majority are root hairs, and that is normal for most microgreens.

We understand the freak-out. That blackout period has us all excited to see what’s growing, and when we take that cover off, we want to see our plants growing beautifully.

And what do we see?

White, everything has white all over it.

Maybe because we know we’ve added water, put the tray in a dark place, and thrown weight on top of the soil trapping in that moisture, that we expect mold.

Or, more likely, we’ve never seen root hairs because we’ve always covered our seeds with soil in the garden.

More than likely, what you see are root hairs.

Let’s Look At Some Root Hair Examples

Many of these pictures were sent by our readers. We’ve asked permission to use the photos. You can click on the photo to expand the image for better viewing. 

not mold on microgreens but root hairs

The white filaments you see are root hairs extending off the seed radicle. Notice that all of the fuzzy white is attached to the radicle.

The seeds and seed hulls have nothing fuzzy growing off them- only the thick white radicle.

no mold on microgreens only root hairs

Even though the fuzzy white spread on this tray looks more like mold on microgreens, they are only fine root hairs that, in some cases, are growing over nearby seeds. Later in the article, we will show you how to help identify root hairs from mold.

Another Way To Tell They’re Root Hairs

Mist them with water. 

Don’t spray them under a lot of pressure. Only mist the white fuzzy things.

If they are root hairs, they will disappear. They will cling to the radicle, but you won’t see them.

Mold, on the other hand, will mat down. You’ll still see it after misting.

Root Hairs Will Disappear in a Couple of Days

The root hairs will disappear in a couple of days as the root grows into the soil.

Mold will not.

If you grow microgreens on mats, the root hairs will be visible for extended periods. The radicles are never drawn down as much as with soil. We also think more moisture is available at the surface when using mats.

So the root hairs remain since they can function in the current location.

So Your White Fuzzy Mass Doesn’t Look Anything Like Root Hairs

Then in all probability, it is mold.

Sometimes mold on microgreens is obvious. As shown in the photos below.

mold on microgreen seeds

In the photo above, mold is blanketing cilantro seeds. To have a mold infestation this large, the source of the spores is most likely the soil.

The following photo of mold on microgreens is common, especially in the age of CoVid.

mold on microgreens in the middle of the tray

It’s not literally related to CoVid, but the cause could be associated with the incomplete composting of the soil material before it was bagged and shipped.

All good potting mixes contain some composted materials. Furthermore, as the potting mix ingredients are brought together, they will re-compost.

The microbes will consume the nitrogen and produce heat whenever nitrogen is mixed with carbon sources.

If the new potting mix is bagged before the composting has, for lack of a better term, equalized, the mix will produce heat.

Warm & Moist = Greater Chance of Mold on Microgreens

The added warmth of the working potting mix might not be enough to trigger mold growth. But when we put microgreens in a blackout period with a solid lid, we essentially created an oven.

The extra warmth from the composting and the constant moisture due to the cover makes a perfect environment for mold to form.

mold on microgreens in the middle of the tray

You will also see a pattern like this if the room temperature is too warm, especially during the summer months in a non-air-conditioned home. Or even when using heating pads during the winter.

The microgreens growing on the outside edges, where it was cooler, will grow nicely, but in the dead center of the tray, there will be germination issues and damping-off disease issues.

We are currently working on perfecting the use of heating mats with completely covered microgreens trays.

So during the warm months, or are using heating mats, we suggest not using a solid lid on the top. Instead, use a plant tray with ridges so heat and moisture can escape from the middle of the tray.

Mold on Microgreen Seeds and Stems

Root hairs will always be on the radicle — the first part of the seed that roots. Yes, sometimes the root hairs of adjacent seeds will grow over other seeds. 

But when the fuzzy white stuff is growing on the seed husk itself or the plant’s stem, that is mold.

mold on microgreen stems

Root hairs will not form on the stems of microgreens like on the mustard microgreens above. We usually see mold-like this form on microgreens grown under a dome and rarely from those grown using the weighted method.

Fungus on sunflower seeds

Mold on microgreen seeds can also spread to the soil, like the borage seeds below.

mold on microgreen seeds borage in this case

Home Microgreens participates in the Amazon Services LLC Associates Program, an affiliate advertising program designed to provide a means for sites to earn advertising fees by advertising and linking to Amazon.com. As an Amazon Associate, we earn from qualifying purchases. We may earn a small commission from the companies mentioned in this post at no additional cost to you. Not all links are connected to affiliate companies.

This is a tray of borage we grew (you’ll see how we fixed this problem in an upcoming article) for commercial sale. You can see that the potting mix is wet. Often, I’m too liberal with the watering and soaked the tray too much when I planted it.

The moisture escapes from the soil and condenses on the cover, over-wetting the soil surface. With rough husked seeds like borage, mold is often the result. 

How to Stop Mold on Microgreens Before It Forms

Mold spores are everywhere; we are always in a spore storm. 

Therefore, the best way to prevent mold from forming is to stop creating ideal conditions for them to thrive.

Below Are 5 Ways to Reduce Mold Growth

Let’s start stopping mold before we even plant microgreen seeds.

1. Start with the Soil

Soil generally comes in plastic bags, and this is good and bad.

Plastic bags are necessary to keep the soil dry from outside moisture. They’re also more durable than paper or plastic-lined paper bags.

Commercial soil bags have holes in them to help regulate the moisture (but bad for fungus gnats and mold spores) and to stop the bag from bursting if it’s dropped or something is dropped.

However, plastic does form a barrier. Any moisture in the soil will condense and concentrate when the bag goes from cooler to warmer temperatures.

The Fix

Always open up a bag of soil as soon as you get it home, or it’s delivered to you.

Then purchase a storage tote and dump the soil into it some there is more air circulation. We like the Home Depot HDX black totes with yellow tops. They are sturdy, won’t bend or fold, come in many sizes, and will stack. 

microgreen soil in tote

A 2 cubic foot bag of soil will fit into a 17-gallon HDX storage tote. If you’re buying smaller 8-quart bags or even Home Microgreens Potting Mix, at the least open the bag to let out moisture. Both ideally get a small container that allows for some headspace for storage.

Even if it dries out, that is ok. It will re-wet, especially the Home Microgreens potting mix, since it’s coconut coir based.

2. Sanitize Trays

Microgreen trays should be washed and sanitized after using them. Mold could have formed on the planting media during the last batch and dropped spores on the trays. Or even the soil can contain spores that didn’t grow in the previous microgreen batch.

That doesn’t mean they won’t the next time.

How to Sanitize Trays

There are many ways to do this.


Small trays like the Home Microgreens Planting and Watering Trays can be rinsed and thrown in the dishwasher, or sanitized using the methods below.

Bleach, Vinegar, Hydrogen Peroxide Soak or Spray

Rinse any remaining soil off the trays and soak or spray the trays with any of these liquids. They will kill or reduce the number of mold spores on the trays.

For bleach, use about a cap full in 16 ounces of water.

When using vinegar, use two tablespoons in 16 ounces of water.

We think it’s safe to use the drug store brown bottle of 3% hydrogen peroxide when sanitizing trays. The stabilizer will be destroyed when the spray dries and won’t be absorbed by roots.

However, only use food-grade hydrogen peroxide on living microgreens or soil. We use this brand. This 12% peroxide is much cheaper, but it must be diluted before use. Don’t use 12% hydrogen peroxide on anything directly.

3. Sanitizing Seeds

Microgreen seeds are often the source of mold. As mentioned, sunflower, peas, cilantro, borage, and Swiss chard seeds with rough and irregular husks are susceptible to carrying mold spores.

How to Sanitize Seeds

All varieties of seeds can be sanitized before planting. But it’s a pain to spread out tiny wet seeds, and they usually don’t provide much of a mold risk as it’s hard for the mold spore to attach to the smooth round seed.

But for the others mentioned above, soaking them for 10 or 15 minutes in a 3% solution of food-grade hydrogen peroxide will help reduce the mold spore count. 

soaked cilantro seed

Rinse the seeds afterward with fresh water. You can repeat this step a couple of times if you think it’s necessary. For instance, if you had mold issues with this seed lot before.

Before we sanitize seeds, we always try to grow a batch first. If the planting doesn’t produce mold, we won’t sanitize that lot until we have problems.

4. Use Soil with Good Drainage

Soil that contains perlite, aged forest products, volcanic rock, and such is a good thing for drainage. Irregularly shaped particles and materials with different porosity will help channel water down and away from the plants.

Fox Farm Happy Frog Soil Mix

Using soil media with particles of consistent size, shape, and porosity will retain water. 

We don’t have to remind you to use trays with holes as planting trays, do we? 

I hope not.

5. Don’t Pre-saturate the Soil

At Home Microgreens, we preach not to saturate the soil while sowing the seeds. 

which is better peat moss or coco coir

When planting microgreen seeds, we only wet the upper 1/3 of the soil profile. Seeds don’t need the soil wet to the bottom of the tray.

Wetting the upper third of the soil is enough during the germination phase. Soaking the whole soil profile causes saturation and heating of the soil interior.

Creating a perfect place for mold to grow.

6. Don’t Over-seed or Clump Seeds Together

Many people have questioned Home Microgreens seeding density. The belief is that we under-seed our trays.

This isn’t the case. We test our seeding density recommendations and base the final rate on many factors related to growing microgreens in the home.

One of the main reasons I started Home Microgreens was the amount of seed other people recommended. The plants were too crowded; the microgreens were all stems and little leaf, and are continuously damp or wet in the tray’s interior.

Triton purple stemmed radish seeds

Overseeding causes disease issues as the microgreens grow up due to restricted airflow.

Mold appears to form in areas where many seeds have come together, whether from bulk over-seeding of the tray or places where seeds congregate, like in soil depressions or around the trays’ edges.

Seed-to-seed contact retains moisture, and since most mold is reported to come from the seed, to begin with, clumping them together makes it worst.

Spread seed as evenly as possible to reduce mold issues. 

7. Small trays Over Large Trays

Small trays will help improve airflow across the microgreens. Mold is more prevalent in the middle of trays. The outside edges have much better airflow and dry conditions than those growing in the middle.

Basil microgreens grown in Happy Frog Mix after 25 days

Instead of growing a large 1020 tray of microgreens, grow a couple of 1010’s or smaller trays. Increasing the edge area of the microgreen mass reduces the chance of developing mold on microgreens.

We Use These Microgreen Trays

We use Bootstrap Farmer Shallow Heavy-duty trays to plant 1010 or 1020 trays. We also use their deeper trays to plant peas or other uses.

These trays will never be damaged with regular use.

Heavy-duty Trays

When we grow microgreens for ourselves, we use the Home Microgreens Trays & Soil. We like the amount of microgreens these trays grow, and we find we can either stagger plantings or double up trays to fit our microgreen needs.

Home Microgreens Trays

8. Only Bottom Water

Keeping microgreens dry is very important to reduce the possibility of mold on microgreens. 

Watering microgreens over the top can only create issues.

Yes, large microgreen growers do water over the top. But these facilities have way more airflow than your house and much stronger lights. We will discuss how airflow and light can remedy mold issues.

Bottom watering only when the soil is dry is the best way to reduce mold from spreading or growing after the seeds have germinated.

watering microgreens from the bottom

Soggy soil is a breeding ground for mold.

9. Good Ventilation

Having some airflow across your growing microgreens is a good practice to reduce the possibility of mold growth.

We have these USB fans attached to our growing racks. We don’t always use them, but when it’s hot and the humidity is high, we have them running. They don’t appear to pull much air through the fan, but they do when you consider they’re running 24/7.

use a fan to reduce mold chance

10. Reduce Humidity

Lowering the relative humidity in the growing area is a good idea. 

Installing a dehumidifier (which also increases airflow) near your microgreens is a good idea if you’re growing quite a few microgreens.

reduce mold by using a dehumidifer

You can also cool the room, which will reduce the relative humidity. 

11. Remedies for Mold on Microgreens

Once you get mold on microgreens, you might not have to throw in the towel. 

We want you to use your own judgment on whether or not a tray can be salvaged. Always err on the side of caution.

Also, wash microgreens before you eat them, not before storage, but before you use them.


Increase the ventilation in the area. Air movement is your friend. Not so much that it looks like the microgreens are in a hurricane, but some leaf or stem movement is ideal.

If you can put them in sunlight, under higher-powered lights, or even move them up closer to the lights, then do it.

Light and air flow are mold’s kryptonite.

Treatments for Mold on Microgreens

There are at least three treatments you can try.

We’ve used two, which will work when the mold issue isn’t hopeless.

Hydrogen Peroxide

A tablespoon of 3% solution of food-grade hydrogen peroxide mixed with 16 ounces of water and misted on the mold can kill it. There is no smell.

You may have to mist the mold more than once. Don’t worry; the hydrogen peroxide turns into oxygen and water.

You will see the mold start to fizz just like peroxide does on a wound. 

We don’t recommend using the drug store H2O2 as it has a stabilizer to increase shelf life.

Vinegar – Grocery Store not Cleaning

Dilute 5% vinegar – this kind sold in grocery stores to use in cooking – at a rate of 1 tablespoon in a 16-oz spray bottle.

Spray the dilution onto the mold. Again, it might take more than one misting.

It will smell, well, like vinegar. It may also attract fruit flies. 

White distilled or cider vinegar will work. There are additives in either. 

Grapefruit Seed Extract

We tried this grapefruit seed extract on the borage shown in the article, and it worked great. We used a teaspoon of the extract shown to the right or below mixed in 8 ounces of water.

One treatment took care of the mold. 

We will post an article on this soon.

So far, we like using the grapefruit seed extract the best. It worked quickly.

Use Your Own Judgement with Mold on Microgreens

I will not take responsibility for any call on whether or not you should trash a tray of microgreens with mold growing on it.

Most of the time, especially right out of the blackout, what you see are root hairs, which are not a problem. 

However, if you’re growing one of the rough-husked seed microgreens, look closely. If it is mold, determine how bad the spread is and decide if you want to treat it or trash the tray.

Spray it once with one of the treatments above, move it to sunlight or closer to the lights, and see what the tray looks like the next day.

Suppose the mold isn’t beaten back considerably. In that case, I’m dumping it and making sure the trays are sanitized before using them again.

We hope this article helps and clears up a few questions. If not, use the comment section below to share your experiences, or use the contact page to contact us.


  • Todd

    Todd is the founder of Home Microgreens & the Home Microgreens store. He also writes for several other websites, including MyViewFromTheWoods.com. Todd worked at a large farm market, garden & nursery center for 20 years. Somehow he snuck off to become a geologist and professor before coming back to his senses to write & lecture about microgreens and gardening. When not at the computer, he can be found in the garden, trout stream, or mountain trail with his new Springer Spaniel Caden.

Shopping Cart
Scroll to Top