the only negative ive heard of bareknuckles so far is that they can be "Scatter Wound" which means that the winds are not guided and not uniform. so the tone will be different.
Scatterwinding is a technique that makes the tone more complex. If the wind was more uniform, more frequencies would be cancelled out. I don't know that BKPs actually sound much different within the same model, no matter if a pickup is machine or hand wound a person still has to make sure it's been wound a certain number of times.