How to germinate seeds (or 12 reasons seeds do not germinate)

Spending time understanding how to germinate seeds is an investment that will pay off many times over.

As with most gardening-related things, understanding why will help you make the right decisions. You’ll save money by not making costly mistakes and have better success with your harvest as time goes on.

Today we will go through the main reasons seeds germinate or fail to germinate (leaving you with an empty pot of soil). 

I have divided this list of factors into the following four subsections: Soil, Temperature, Water, and Other factors.

Soil: Using the correct type of potting soil mix

You do not have to use potting soil for germinating seeds. When we grow hydroponically, we use Rock wool grow cubes, LECA pellets, coconut coir, and many other growing mediums.

But today, we focus on potting soil as it is still the most widely used growing medium when home gardeners start seeds. 

1. Potting soil is too hard or compact  

For seeds to germinate, your soil must be moist and aerated. And if the potting soil is too hard or compact, it will be difficult for the root system to grow and develop as there will be a lack of moisture and oxygen.

It is easy to spot too compact soil, as water will sit in puddles on top when you water from the top.

If you choose to bottom water your pots, it will take forever for the soil to absorb enough water as the hard soil sits in the water like a rock.

Your seeds will fail to germinate and die from a lack of moisture and oxygen.

Solution: Use perlite or coarse sand to help aerate and loosen your soil if too compact.

2. Potting soil is too loose 

Potting soil and potting soil mixes will often be very loose and airy when used directly from a bag.

If potting soil is too loose, it will fail to retain moisture, and plants will struggle to find support for the root system.

And seeds will not germinate if the soil lacks moisture and dries up. 

Solution: Add more moisture or potting soil to firm up your soil if too loose and airy. When filling your pots, use your fingers to gently firm the soil by pressing down on it.

Check out our video on how to assess the right firmness and structure for your soil in this video:

3. Potting soil too rich in nutrients

Seeds do not need any extra nutrients to germinate and sprout first leaves.

And when the first leaves have sprouted, photosynthesis will provide the seedling with all the nutrients needed for at least the first couple of weeks. 

If your soil is too nutrient-rich, the first fragile roots your seeds set may be damaged or “burned” as they start to grow.

And it makes sense if you think about it. We successfully germinated seeds using rock wool grow cubes and LECA pellets without any added nutrients. 

Solution: Use a lean potting soil or potting mix when starting seeds and do not add any nutrients until the seedling is established and ready for repotting into a larger pot. 

Getting the temperature right for seeds to germinate

Sure, we plant seeds outdoors in January when there is still frost and snow. And yes, the seeds do germinate.

But this does not mean that all seeds germinate in cold conditions and that heat is not essential. In fact, heat is necessary for the successful germination of many seeds like ghost peppers, habanero peppers, and cherry tomatoes

4. Too hot for seeds to germinate

Your seeds need heat to germinate. But if the temperature is too high, seeds will die.

It is too common to place pots on a window sill on top of a radiator that is full blast. And it is only later that we understand that it is an effective way to kill your seeds.

And yes, I have done this more than once.  

Solution: Read the seed packet. If there are no instructions about temperature, assume that 18-22 degrees Celsius (64-72 Fahrenheit) is a good temperature.

5. Not hot enough for seeds to germinate

If you are starting seeds indoors early in the year, you will most likely need to use an external source of heat for seeds to germinate successfully.

In zone 7, this means placing pots on heat mats or heat-generating appliances when starting seeds indoors in January and February.

Some seeds may still germinate without extra heat – but it will take much longer. Other seeds, like ghost peppers, Padron peppers, and Orange habaneros, will not germinate in cool soil temperatures. 

Solution: Follow instructions on the seed packet and place pots on heat mats on heat generating appliances like a refrigerator.

6. Wrong type of heat

To help your seeds germinate successfully, you want warmth to come from underneath to warm the soil.

A perfect room temperature will not help if the pot stands on a cold surface. But the opposite will work just fine. Placing a covered pot on a heat mat works great even when the room temperature drops at night.  

Solution: Make sure to focus on the soil temperature over the room temperature. Use heat mats or heat generating appliances to ensure that you heat your pots from below.

Watering enough – but not too much

As a rule, you want your soil to be moist but never soaking wet. And it would be best if you aimed to water thoroughly and less frequently rather than a little bit of water several times a day.

And as a rule, a mild dry-out is better than soaking wet soil.

7. Watering too much (Overwatering) 

When starting seeds, you want the soil to be moist. If the soil is too wet, the seeds will rot and die. And for me, the easiest method is to work with pre-moistened (or pre-watered soil).

After filling the pot with pre-moistened soil, I use a spray bottle and covered seed trays to keep the growing environment moist.

Top watering using a watering can risks displacing the seeds where all seeds float to the edge of the pot where there is less soil and goodness.

Bottom watering is, in my opinion, a better method than top watering. But with bottom watering, you must remember to let the pots drain off to avoid the soil getting too wet. 

Solution: Be careful not to overwater your pots. Wet soil will lead to seeds that rot. Use pre-moistened soil, covered pots and then use a spray bottle to maintain a moist growing environment.

8. Dry outs and not watering enough

You do not want the soil to dry out as it may damage the seeds irreversibly. 

For me, this happens when the cover, for one reason or another, fails to protect the soil from drying out, especially when pots are placed on a heated surface.

Solution: Check pots daily and make sure that cover is in place (and not knocked off by a nosy Ragdoll).

Other factors affecting the germination rate of seeds

9. Storing seeds incorrectly

Storing seeds incorrectly will affect the germination rate of seeds.

And storing seeds can be made into science, where you can buy cold storage units and fancy state-of-the-art equipment.

But as a rule, remember to store seeds in a dark, dry, and cool place. 

  • Dark as in a room or compartment with no light
  • Dry, as in no moisture 
  • Cool, as in around 2-5 degrees Celsius (35-40 degrees Fahrenheit)

The back of your refrigerator can be a great alternative, or maybe in a cellar or a garage.

Solution: Store seeds in a dark, cool and dry place. Aim for the best possible solution at hand. Remember that doing something is better than doing nothing and it is not about achieving perfection from day 1. 

10. Bad seeds that do not germinate

It happens.

Sometimes seeds are just empty husks masquerading as viable seeds. 

We plant and wait, and nothing happens. Pre-germinating seeds is a great way to get rid of old or bad seeds early. 

Pre-germinating seeds helps weeding out the duds
Pre-germination on paper towel

If pre-germinating is not practical, plant at least two seeds per cell or pot to increase your chances of successful germination.

Or see below for over-seeding.

Solution: Planting bad seeds that do not germinate happens to all of us. Pre-germinating seeds will help you get rid of duds early or simply plant more than one seed per pot. 

11. Lack of patience

Seeds can take anything from days to weeks to germinate and sprout. 

We expect seeds to germinate in 7 – 10 days when we grow Thai basil. Growing sage, we expect germination in 2-3 weeks, whereas hot peppers like the Bhut Jolokia ghost peppers have been known to take up to 5 weeks to germinate.

And sometimes, we have to be patient and wait a bit longer before giving up, only to find that the seed is, in fact, in the process of germinating.

Solution: Read the seed packet and get yourself a general idea of the time it will take for the seed to germinate. I always wait for at least an extra week as I know that some seeds will need more time than others. 

12. Seeds with a low germination rate

And then you have the seeds that suffer from a meager germination rate even when you do everything right.

An example is white sage seeds, where a germination rate of 20-30% is far from uncommon. Here over-seeding can help you achieve success.

Over-seeding is also a great approach when using old seeds, like the seed packets left over from last season.

Over-seeding is a great way to maximize use of old seeds
Over-seeding arugula to play it safe

In the photo above, we are over-seeding last year’s leftover arugula (rocket) seeds.

Solution: Make sure you sow far more seeds than the number of plants you are aiming to grow.

Bonus! When light is beneficial, though not necessary

Dill, lavender, lettuce, and rosemary are all seeds that respond well to sunlight when germinating.

But it is not a must – for example, I always plant lettuce seeds about 1 centimeter (⅓ inch) deep. 

Basil seeds germinating in starter pots on heat mats early January
Basil seeds germinating and sprouting (planted indoors in January 2022)

Mattias Magnusson: Hello, I'm Mattias, a passionate and experienced gardening enthusiast. I am the creator of, your guide to year-round herb and veggie growing. Let's simplify green living, no matter your space or location.