Some interesting points some good ones

But some don't compare on an even level. Giant squid <-- is a great example of scientists messing up for a while.But thats a wild animal that wasn't found , not a blue version an orginal breeder made for sale and advertised as a hybrid while others claimed to know more then the breeder.
Reading the bluejax site, there have been blue and blue spawining, the fry living for 6 days. To me, that is enough to show they can breed and have viable fry. A mule won't produce offspring.
Not,so and here's where people can use the mule line of thinking for dempseys and reconsider the hybrid idea
In most fertile mule mares, the mare passes on a complete set of her maternal genes (i.e. from her horse/pony mother) to the foal; a female mule bred to a horse will therefore produce a 100% horse foal. In the 1920s, "Old Beck" (Texas A&M) produced a mule daughter called "Kit". When Old Beck was bred to a horse stallion she produced a horse son (he sired horse foals). When bred to a donkey, she produced mule offspring. Likewise, a mare mule in Brazil has produced two 100% horse sons sired by a horse stallion.
A comparable case is that of a fertile hinny (ass mother, horse sire – the reverse of a mule) in China. Her offspring, "Dragon Foal", was sired by a donkey. Scientists expected a donkey foal if the mother had passed on her maternal chromosomes in the same way as a mule. However, Dragon Foal resembles a strange donkey with mule-like features. Her chromosomes and DNA tests confirm that she is a previously undocumented combination
Fish hybrids don't work the same though either , look to flowerhorns for more examples,some lines of flowerhorns are now made up fish from 6 (or more) genus and 10 (or more) species , they readily reproduce. Even though they were orginally/falsely marketed as a natural species they have since become know as hybrids,been more hybridized and still have full ability to reproduce.Fortunately a group of responsiable breeders is trying to keep those hybrids from entering pure lines now.
Not saying hybridizing is right or wrong, but would it be as much of an issue if the EBJD turned out to be stronger than the normal JD?
Yes! fish store "midas" are strong,some look great to! but most are midas X red devil hybrids,fact is hybrids are 1000 times easier to find then either,why loose 2 species to make things easy?
I would say the fish hobby has the highest ratio of pure bred animals. How many people you know that have papers for their cats or dogs?
You are mistaken some on that point.
papers mean nothing as far as cat and dog hybrids - all domestic dogs are the same species Canis familiaris , a breed is just that species breed for different traits (mutations) over several generations. Makeing a hybrid dog would be something like dog X wolf hybrid. A dalmation X lab X poodle = mutt/whatever, is all still just Canis familiaris , 1 species no hybridization.
The problem is though in the fish hobby money values are lower so noone cares until hybrids catch on as "real species". Some people refuse to listen and the people who know often give up. I haven't given up yet though I like cichlids,so I'm not sitting around until everything becomes one generic cichlid.
Some real common examples,to think over:
Parrot cichlids <-- hybrids midas X severum , try to buy a parrot cichlid a real one (species=Hoplarchus psittacus) most places and you get something far far different.
some fertile,some not , a gamble like a mule "Flowerhorns" <-- just search forums and see how many "is my flowerhorn a trimac" or "I bought this as a _____ but it's a flowerhorn" type of posts you find.
fertileO.B. Africans <--- the hybrid varities are becoming endless! Ask someone that is generally considered important, maybe Ad Konings , if all the O.B. types in the hobby exist in the wild,ask how many are misshappen and known to be hybrids, you might be shocked.
fertileAlbino africans follow africans for a while, I'll bet you'll notice something - when an albino pops up,suddenly several similar shapped species are suddenly avaliable as albino's and the first generations look slightly misshappen.
fertilemidas/red devils it's been stated (over and over) and learned over and over the vast majority in the hobby are hybrids. Some people say as many as 99% sold are hybrids
fertilefor those deep in the hobby there's the other supposed new species (usually expensive too) that prove to be hybrids
I'm no huge dempsey fan but consider if the blue is a hybrid - if only 50% of the people who own them breed them and follow the outcross program. There are a lot of dempseys floating around the look normal from the outcrossing,they don't sell for more because they look normal. - How many of those circulate back and end up bred with normal (know pure) dempseys and make more hybrids that nobody has a clue about?
In a few years will there be a rush then to fix dempy's , like there is with midas and devils? Before someone says thats different - remember , common thought was they just looked different because they were different sexes (even the 9 species reciently described and named via DNA) . Seems senseless.