Earlier today I downloaded the demo and was having the same issue. After playing around with my settings, I found a solution:
Right-Click on your "Avernum 3" desktop icon, select properties, and go to the "Compatibility" tab. In here, check the box next to "Override high DPI scaling behavior. Scaling performed by: Application". Save and close the box. Now run the game and see if it fixes the problem. It will show the box in the widescreen, rather than it being fit to the size of your screen - this is because the game is trying to upscale the box to match the size of your screen, which causes the overlap.
Hopefully Spiderweb will come out with a way to fix this permanently and stretch to scale widescreens instead of upscaling the standard resolution.