When using the max slow down speed random interstages will fire. The staging will skip. I hadnt activated my first stage but it went all the way to 4th stage. I never clicked a button. I am using high settings and I dont have any controllers connected. This has been happening since before 0.9.5
I'm surprised you can even get the game to work. Playing with high settings on a low-end device will cause constant crashing of the game, you should consider lowering the settings and see if that fixes your problem.