It is sad, but those are the bloodlines that win at the big shows. Especially, the halter lines. Not too sure about ApHC, but the AQHA is banning registering the HYPP horses in the near future. Amy had to send in hair samples for Biscuit before they registered her.
The ApHC is also planning to do that. The biggest problem are breeders that breed that consistantly (like the guy in Georgia and a breeder near here) and judges that pick them over anything else. Very depressing.