Not an expert by any stretch of the imagination, but I have spent a lot of nights in the military bivvy sacks you linked. Coldest was about 12 degrees with wind chill in northern Idaho. Other notables have been lower 30s in the socal mountains and lower 20s in northern Virginia with snow on the ground. From what I am reading about your needs this will be an excellent solution. One of the nights in VA I spent with a bivvy sac, green patrol bag, and poncho liner, no ground pad. I was a bit cold but slept pretty well--proving a point to the younger guys that they didn't NEED all of their snivel gear. I started out using the shelter halves and green fabric bags, moved on to the three piece system and then used the new two piece coyote system. You have already identified the issues with the old system. The three piece system is stupidly warm if you are small enough to be able to fit your mat inside--it is warm, but if you dress light (polypropylene base layer) you shouldn't sweat and you can vent the hood to decrease condensation. On the 12 degree night in Idaho I was in the bed of my t100 with a 3\4 length pad, black bag, bivvy sack and a tarp to keep the wind off, I was very comfortable. That said, that system is not what we use for winter mountain training and it does have limitations. I would (and do) use it for the following:
1. 4 season moderate climate bag--add or remove pieces as needed
2. 3 season cold climate bag, with use in winter restricted to short duration trips 1-2 nights or have the ability to dry it out periodically. I wouldn't use this system as a solution for "real" snow camping or extended cold weather trips. Pass on the new coyote system--the bivy sack is designed a bit better but it is less waterproof and the single bag isn't nearly as warm as the black bag from the three piece system. Sorry for long windedness and spelling errors. In hospital on drugs on tablet