Thanks for the reports! RE: Controls randomly stopping working, how quickly did/does it happen? (Also do you have more than one input device [e.g. a gamepad, flightstick, wheel, graphic tablet] plugged in. Also did the controls stop working at any point before a death/before you went back to main menu)
Control issues happened mostly at random: Sometimes after crossing a noise source, R stopped working, even by mapping a macro key in both my keyboard and my mouse to register as R. Sometimes it was a movement key (E and LEFT in my case). It could also happen just right after starting a new game in which also the loadscreen could freeze and the game would still run behind it.
Starting a new game (by either death or by quitting back to main and starting a new one) causing control/softlock errors is a known issue that's being fixed but controls becoming unresponsive is new. I've not been able to get my local copy to have the same problem yet.
Could you e-mail your game's log to theforgottenworkshop@gmail.com? (You can do WIN+R to pull up Run and then put in "%APPDATA%" without the quotes to get to your AppData/Roaming folder; from there you'd want to go up a folder to 'AppData', down into the folder "Local" and then either "Forgotten Workshop/Unfathomed: Event Zero" or "Unfathomed: Event Zero".)
Can you also verify your game says it's "V0.02B" on the main screen? [version number is located in the bottom right]