In short the BHSE is a far more mature design with improvements across the board. In terms of build quality there is no comparison between the two and since the BHSE runs so much cooler (despite running at a higher bias) it will last a lot longer. I have fond memories of my old BH putting nice scorch marks on the cheap EL34's it shipped with and some heat damage to the PCB. Nothing of real concern but it goes to show how hot that amp got and something I still combat as I continue to build amps with those PCB's.
The major change is to the output stage CCS which employs new parts and the input stage has also been improved. Better power supply, better bias supply and numerous other tweaks.
Any claims of the 2SA1968 based CCS being inferior to the IXYS alternatives are just BS based on pure conjecture. Those of us that have compared the two know this and the real reason why the 2SA1968 was dropped was cost (they cost 7$ each and you need about 10-14 of them per channel) and the small issue of the 2SA1968 not being made anymore. Not an issue for me since I have close to 1000 of them...
For the sake of clarity, the amp Milos had at the Nor-Cal meet over the last weekend is indeed a Blue Hawaii but it is run at full bias and with an appropriately oversized power supply. Milos just calls it a BHSE since the differences are lost on most people. I did write up a full review of what went into making that amp but the email reached him too late. The Blue Hawaii Naaman built was never run at full spec due to heat issues so it will not compare to something like the amp I built for Milos.