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Hi Moldy Turtle Burgers, your question may have been answered but I'll tell you my perspective as well.
Incest (close relative matings) do not cause lower fertility to *magically* appear (unless lower fertility is already a problem in your pack or you mutated a lower fertility in your mutation menu for some reason. If your pack members all have the highest fertility (which is 6, from being homozygous for High Fertility), then the fertility genes will not change. What you should be concerned with is Immunity Genes (A, B, C, etc.).
In fact, I do the same thing, where I mate immunity compatible Nichelings.
When mating with a wanderer, they often have very poor fertility. The same with Bearyena hybrids. (Which, you are right, is hilarious.)
In Niche, it would actually be favourable to inbreed. Outbreeding is purely egoistic, but it does allow for new immunity genes, which are indispensible.
TL;DR:
Look at the last pair of genes in the genetics tab. Those are the fertility genes. There are four types: infertile, low, medium, and high. Nichelings are diploid, so they have two copies. The minimum value is 0 (two copies of the infertile allele), and the maximum is 6 (two copies of the high fertility allele). Make sure to track the lower fertilities, and try to not breed them excessively.
I would say inbreeding (in this game) is the normal option, as outbreeding requires meticulous record keeping of multiple genes that are not as good as your pack's. If and when your pack is ready for breeding in a stranger, it takes some time to reverse the effects of the stranger's less-than-desirable genes.
Cheers!
One way to potentually make sure that only higher fertility genes get passed on would be to make a soft rule that each individual creature can only try to mate so many times, if the mating fails every time, they can't have any kifs. this way, only the fertile and lucky will ever have the chance of baring the majority of offspring.