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I purchase animals specifically for breeding and I'm very picky about them. So, in the case of your boa, that's not a critter I would have purchased as a breeder, it would have been pet-only.
Also some breeders will sell critters with slight imperfections as pet-quality for a reduced price with a non-breeding first right of refusal before resale contract. I'm assuming that isn't the case with your boa.
IMO the random clutch or littermate with an imperfection isn't a reason to stop using a particular pairing.
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