I found some issues while playing:
1) At some point, my savegame got "corrupted" so I get an error when I try to open the save menu. I can choose "ignore" and keep playing, and I can open other parts of the menu with "history" and "preferences" buttons. I can still quicksave and quickload, or go back to main menu and open the save menu there. Basically I just can't access save menu while that savegame is loaded.
2) Subsystem selection (engine, shield, weapons etc.) in the system maintenance screen can behave wonky in a way that's hard to explain but easy to see, when I click on other subsystems to switch between them. If I click on the system directly to the right of the active one, the whole list scrolls once to the right (correct behavior). If I click on any other system, part of the list scrolls left and part stays. It's the easiest to see with the ones to the left of center - right side will always stay in place. The scrolling part starts at the point you clicked, goes right (looping over) and ends at the center.
3) Subsystems menu gets really weird when some of them are missing. Then I can still use left/right keys and prev/next buttons to switch to missing subsystems, and try to put subunits into their slots. If I click anything in the dropdown list, it plays the "nothing installed" sound, and the dropdown menu stays visible in the background. When I close the maintenance window, that dropdown menu is on the screen, and disappears when I click anywhere outside it.
4) I think a vanilla feature is missing here. In vanilla, if you have a delivery mission for some item, and you have more than enough of it in your cargo, and you're on a station, and you click "sell all", the game keeps the required amount while selling the excess. It doesn't work like this in the mod, as far as I can tell.