Ehhh, in moderation incest technically is only a matter of ethics, yes. But over the course of several generations incest becomes much more threatening due to genetics. In a large population, one member of the group developing a minor genetic mutation or defect will have a negligible effect (unless is it a particularly desirable mutation that makes the subject a more attractive mate and thus gets spread). A minor genetic mutation like this will get passed, sometimes, to said subject's children, and from them to their children, and so on and so forth. Each time you roll the genetic dice you have a chance of the mutation proceeding on, or disappearing. But the mutation is much more likely to continue on if both of the parents have the mutation. And what better place to get the same mutation than siblings of the same mutated parent? Now, mutation sounds like a very bad word, but really these changes are usually minor so if one or two generations do this its fine. But in the long term, mutation upon mutation can stack up and without a wide breeding pool, have little to no chance of ever being culled from the genetic pool. In this way, minor defects can build into major genetic threats given enough generations.You seem to be neglecting the fact that, much as people may be opposed to the thought, the concept of incest is entirely developed by humans through the development of ethics. After all, while it may not seem like it to us humans due to our sheer population size, the avoidance of in-breeding is actually detrimental to the procreation of a species as a whole. As far as Fœnum is concerned, it's entirely possible that certain species don't worry with the same trifles we have in our human ethical code, and are more worried and focused on their races' survival.
In addition, while it is getting a bit close to the line by bringing up the subject, I feel it is worth mentioning that in most Christian religions, the beginning of man from Adam & Eve was rife with inbreeding for multiple generations. It's not something focused on too closely now that our morals and ethics frown more heavily on inbreeding, but it's worth bringing up, as it's possible that the beginning of the Longma race from "Honored Mother and Father" are thought of in a very similar light.
TL;DR In a large breeding pool, people who are more attractive get more mates, people who are less attractive physically, mentally, or economically get less, thus leading to evolution. In a small breeding pool, which leads to incest, you can't choose one over the other due to limited options. So you risk the chance of undesirable or harmful mutations developing.