Problem:
Overlapping, z-ordered plugins that have always been remembered correctly, upon project load, in previous versions of Cubase, now are not remembered correctly.
Steps to reproduce:
Overlap some plugins in a way that suites you, save project, reload project.
Workaround:
No workaround, just manual work. In my case, I have about 20 plugins that now have to be clicked on to reset their proper z-order, every time the project loads (which is a lot).
The main ones that I use like this are Waves Dorrough Meters. A ton of them.
Bummer!
UPDATE: I’d like to add that the issue is the same regardless of “set window to top” settings for the plugins. In both cases the Z-order is not remembered.
Also, oddly (and perhaps Murphy’s Law) the plugin z-order overlaps are always set completely backwards to how I wanted them. 
Not enough of a big deal for me to revert, I have the chore cut down to 13 clicks when I load a project, each time.
But, I’d like to point out there seems to be an increasing number of “chores” with version 8’s new features, already (e.g., I counted 12 clicks to Render-In-Place and have a post about that). So having to add to that things that worked correctly in previous versions, is irksome.
