See, the interesting thing about this is that your screenshots seem to show a layout style that I was unable to reproduce. I have an idea what's going on here though, so I'll take a look in the next couple of days and see if I can fix it.
Your layout is different than what would normally show with the Visustella defaults enabled, namely, the key info window should show up at the top of the scene, but since it appears you have the little touch button thing disabled, it put it at the bottom instead. I wanna say that the reason that one window is not showing up is because it's actually being drawn off the bottom of the screen because it's Y position probably based on the bottom of that key input window. Although since this display code was mostly unchanged between the MV and MZ versions of the plugin, and that window doesn't exist on MZ, that actually seems kind of unlikely.
It could also be that it's being drawn underneath the item slots and preview windows instead, but the VS plugins make it so that windows drawn on top of each other can be seen through the semi transparent windows, which doesn't appear to be the case in your screenshots.
In any case, once I can reproduce the problem, fixing it should be pretty simple, I think.
~Ramza