I spent a long long time setting all my midi outputs manually in an incremental order as Cubase in its infinite wisdom will not let you use an automatic shortcut.
Example: Midi track 1 output 1/2
Midi track 2 output 3/4 etc…
My project seems to load okay but as soon as I close any folder track Cubase will reset 70% of the tracks in the folder to output 1/2 again…
Please see the video looking at the midi outputs when the folder is closed and reopened.