Under KDE Plasma 5, plugin and various other windows will not stay on top of any main window; therefore a workaround is required.
In order to force ancillary windows in Ardour to stay on top, the following steps are necessary:
At this point you can close the System Settings application.
According to one of the lead KDE developers, they are not willing to follow the ICCCM standard for utility windows. Apparently they are alone in this understanding, as plugin windows on Ardour under Linux work out of the box on every other WM out there.
Under KDE 4, there was a workaround in Ardour (Preferences > Theme > All floating windows are dialogs) that would "trick" KDE into forcing certain window types to be on top of their parent windows, but this no longer works under KDE Plasma 5.