Hey @decooney,
1) Yes, it came with the same EH tubes as the stock unit.
2) I haven't opened the chassis to check the capacitors. I know nothing about capacitors so I wouldn't know what to look for anyway, but I'm pretty sure they did install the upgraded caps. Well, I hope anyway. The shipping box does say 'Ultimate Edition' on it, and the packing slip listed the ultimate upgrade as well. So that gave me the confidence that the upgrade was indeed installed.
3) Before the upgrade, and I mean my original unit, I had probably only run it for less than 40 hours before shipping back. My current unit with the upgrade has about 50 hours so far.
I'm not aware that Cary has done any burn in on the unit before shipping it.
Thanks for sharing your experience with the Mundorfs, that really helps keeping my hopes up that the sound will continue to improve. I will definitely try to be patience and let it play out. Time for some meditation 😀