Hi
I am sorry for the long delay, I had other things.
I came back to this. I cleaned up the first instrument as I had to do some design changes. I did everything with joints. I created a copy with Save As, deleted all the others.
I still have a problem where if I Copy/Paste, I cannot make changes (which is as intended, but a 'break link' function would be very useful, and more in keeping with how the link in other things work).
If I do a Paste New, I have the same problem where the faces are closed, not extruding correctly. I cannot really clean it up either, since the extrusion command is done on the first instrument.
The only sorta working way I found is to create the first instrument, Save a Copy, then reimport as the second instrument, and break the link. Then, I still have to fix the extrusion problems, but since it is now on a local Sketch, I can see what to reselect.
The only problem with this workflow, apart from being tedious, is that I can only break the link for all subcomponents created in the first instrument. When I click Break Link, it does ask me to do all, but the only things that retain links are external components like pots and screws.
Since these instruments only differ in the position of the encoders, ideally I'd love to have the bottom and middle layers to be the same (and have cutouts for all the versions) and only break the link for the top layer, which is unique. this way, most of the components would be interchangeable and produced the same.