It doesn't occur every time I switch the scene/frame. But when it occurs, my game flickers between the rendered game and black multiple times before slowly stopping. I am not sure how to help with diagnostics. 

I do run Linux and use Wine to run the Windows game. Maybe you could share some technical details so I can see if there are known issues for your game engine you use for example. Sometimes that is the case. A good example for such games are games that are made using RPGMaker. They often times require some small patches.

Thank you!