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Cliffton, if I understand your situation correctly, these larvae must be from the original queen, so they would carry any AHB genetics, and would also open-mate with drones that are likely Africanized. If you are trying to avoid AHB, I would say the answer to your final question is "yes".

As to whether the new queen will cause the qc's to be destroyed, I think it is a toss-up. I would probably wait about a week, giving the new girl some time to settle and begin laying. If you find eggs, she is good to go. And then you can deal with with queen cells.
 
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