Awesome mod, it's not very often Quake makes it into the news recently, more impressive than a lot of recent 90s inspired fps'es, it's really impressive.
The 1.2 release has quite a few bugs much like
LechuzArgenta noted, the HUD missing problem can be fixed by manually changing the HUD detail within the settings rather than using the -/+ keys, as they don't seem to work. Music also needs to be turned on manually, as by default it'll be set to 0%.
Another strange bug, is that i keep getting these errors requesting for some sound files which don't exist in the QBJ3 folder. I've attached a screenshot of said screenshots, but they're all something among the lines of "splat1.wav", "axhit1.wav" and another whenever autosave kicks in every so often, not the hidden one that saves every couple minutes or so, but the one where it explicitly tells you in a message that it made an autosave, and it'll say that "save.wav" is missing.
To note, i am using ironwail 0.8.1 (as you can tell), and the original Quake 1.06 files from my old digital copy, (Pre-Nightdive remaster as i didn't feel like redownloading the whole remaster just for this) These errors only show up in QBJ3, everything is fine in Quake itself.
Thanks again for such an awesome mod, hope these issues get ironed out!