Of course it does, all it takes is for a female to decide that a male with 2 bars is not good enough and his genes are gone, just like that... A solid white clownfish would stand out much more in an anemone, and certainly be the first one targeted by a predator, and so on.
Now again, even when in 10-15 years we start getting things with very different color, I really don't think that it will be bad. All that we can produce by selective breeding is already naturally occurring (and hiding) in the natural population. Mutations are very, very rare events. All we do with selective breeding is uncover those mutations, but make no mistake, they were already there.
IMO, the coloration of reef fishes in general is in large due to sexual selection. Similar to the way that we see such diversity with tropical birds. Most of the fitness needs of clownfish are met simply by hovering in their anemone hosts.
Yes, an all white clownfish is likely more visible to predators and that variant would be picked off. But there are still WC variants of almost entirely white clownfish or extremely aberrant barring. IMO, from both experience, but mostly photos and online videos etc... Clownfish do not seem to blend in with their anemone hosts. I know that some reef fishes are reliant on camouflage, but most fishes coloration is due to sexual selection. Not all clownfish have 3 bars.. They are a wide variety of colors independent of their hosts.
I don't think we are really thinking much differently here.
It just drives me nuts when people say.. "that clownfish would get picked off in the wild." That is not true, anthroprogenic influences on the phenotype might even be beneficial in both sexual favorability and survivability.. I remember reading studies where people drew colors on male birds and that those random, newly introduced bright colors increased their mating potential.
I think that all this Hybrid clownfish breeding and "designer" variants are good for the breeding industry and good for the hobby. It gives buyers the opportunity to have a fish that looks unique at an affordable price. It give sellers the opportunity to make a hold in the fish breeding market with a specialty.
People complain about prices.. Well if they want a really rare species, those species are difficult to acquire, often a risk to bring in and difficult to acclimate, and prices are out of the roof! People should be thankful for the creativity and talent of the breeders creating hybrids and unique variants.
These clownfish do not have "weaker" genetics