Perfectly. 
So, yesterday I played a bit with multiple displays, a thing I never did before. Basically my conclusion is that, as it stands, Arcadeflow is not good as a display menu theme, so if you don't want to have issues (like the first picture you posted with all the boxes overalpping) you should go in Displays -> Display Menu Options and select "Default" as "Menu style / Layout". With this setting you should have the display list in the usual overlapping menu, for some reasons the "frosted glass" effect is missing here, I'll see if it can be fixed.
Of course it would be much better to be able to use Arcadeflow for the displays too, but I think I'll have to recode it properly because it seems to have issues right now (which is expected because Arcadeflow is heavily tailored to Mame).
As far as the missing labels bar is concerned, could you test if, with Arcadeflow 4.3 and using the "Default" theme for display menu, the label list is working as expected?