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Excluding that one bad egg your second clutch looks fine so far!
Some thoughts on the first clutch:
1. How soon after they were laid were they collected?
Sometimes the mother can shift the eggs out of position and mortality increases.
2. Where is the thermostat probe in your incubator?
My incubators suffer a range of temperatures at different spots. Probe placement is critical, the type of thermostat will also necessitate proper probe placement and adjusted temperature setting.
3. What type of thermostat are you using: on/off or proportional?
If you are using on/off and setting it to 89F then you could have serious temperature swings as the heating pad repeatedly overshoots its target.
4. What is the ambient temperature around the incubator?
We had several heat waves in my area the last few weeks: I had to use an AC unit in my room and leave the door to my time lapse incubator open to lower the temperature.
5. It could be a trick of the light: Does your pearlite look brown in the photo?
I was expecting bright white. Some garden supplies sneak in additives. I personally don't trust vermiculite.
If all of these factors are fine, then you might just have bad luck. Of course there are smaller factors that might cost you an egg or two from each clutch: (e.g. tap water vs. distilled water, prior disinfection of the egg bin, etc.), but, I have not seen these wipe out an entire clutch.
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