Update: Since the Violet LEDS seemed nearly useless, I decided to play with them. In short, I sanded the the encapsulant/dome down to see how far the browning went. Well, it's NOT on the surface but definitely within the composition of the encapsulant itself (about half-way), which indicates to me there were contaminates during manufacturing. Or is porous? Probably not.
This said - both LEDS are working OK now. I don't know how much the beam angle has been affected by grinding the dome flat but given I use them as accent lighting just above the water's surface, they seem to be doing the job for now.
Thus, if any of you have browned out encapsulant, pull out the dremel, grind down the dome until the brown is gone, and then polish. I'm guessing that if also using a lense, grinding down has very little effect final beam angle.