I have done all three non-military research achievements more than once and made sure not to research anything in diplomacy either. I also went on and got the advent fleet diversity in the same game where the harmony research should have triggered and that failed to trigger as well.
I don't know if it makes a difference but I did them all on the point blank map with pirates inactive which is easy for these. Just send a cap ship around the loop of planets colonizing as fast as you can and use the rest of your fleet support to leave a group of the base frigates at the home world (which is right next to the opponent home world on that map). Then whenever you encounter the enemy on one end of the loop, hit him on the other. Play smart and you can easily overpower him and then just build your research structures, queue all the research and wait.
As I say I have done it with all 3 races on this map and none of them triggered.
I also made a custom map and did advent military researcher and that did not trigger. I also played that one on and did advent fleet diversity and it did not trigger in that game either. However when I made the custom map the world builder achievement did trigger so clearly it is not a matter of all achievements being broken on my installation.
I did see where some people had achieved each of these. Makes me wonder if they used to work before 1.1 or if there are other factors which effect whether or not they trigger. For instance I have the other two fleet diversity achievements which I am sure I got before I patched to 1.1. I am sure I will have many other opportunities to try the advent fleet diversity again as well, I only just recently started going for achievements on purpose so that should tell me if it is a matter of other factors effecting it or if it is a matter of it being outright broken.