I might be in trouble

[dr del]

So am I just adding water to the eggs and sticking cotton around where I cut to reseal the egg?

As of today the smaller baby has been moving around in the egg quite a bit


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No, your adding water to replace any egg white that was lost during cutting or rehydrating it if it starts to get too dry and gloopy.

The cotton buds are just for removing any debris or patches of fungus that end up developing inside the egg - it's too late to try and reseal as you have already compromised the immune system of the egg.