Ahhh, it took me a second to figure out what was happening here, because I recently started getting something similar with Vesta (it was Brine Production for me, which is apparently a known issue).
It seems that Maraxsis is constantly generating oxygen, which somehow pushes the related trigger tech to the top of the research queue (Brine Production triggers from oxygen production). In my case, it only started after I enabled Complex Mode (which was disabled on my save for some reason).
I get the feeling these Ammonia technologies might be getting affected by some other natural process in the game, similar to the Brine Production/Oxygen from Maraxsis issue, and may not have any clear solution, apart from disabling one of the related mods (or in my case, disabling Complex Mode to stop Vesta from activating).
I believe Shchierbin might have sidestepped this issue by changing the Ammonia Synthesis trigger tech to be a standard researchable tech instead (at least, it is this way for me on v0.3.13).
Also thanks, glad to hear you've been enjoying it!