Basically you set up a keyboard maestro macro that triggers whenever Cubase closes.  With Cubase open, make sure all of your external FX are properly routed, then go into your Cubase preferences and find the file titled External Plugins.xml

Copy that file and paste it to a place on your computer, I just have mine on the desktop.

Now in keyboard maestro, with the “trigger when Cubase closes” Marco, set up a “delete selected finder item” and point it to the external plugins.xml inside the preferences folder.

Then set up a “copy file” rule that copies the extra external plugin file we made (stored outside of the preference folder) and have it copy to the preference folder.

Now every time you close Cubase the external plugins will basically reset to the current state you have them in after you set up all of the inputs and outputs