I see what you mean, it is probably quite unclear what the functions are on first sight! I must have gotten used to the layout so much that I didn’t think of adding labels! The knobs should be laid out like on the original though, so having one yourself should help with figuring out what everything does 
The four pin matrices function like one 16x16 matrix (minus the Meter Output, I want to put that in but I first have to see how it’s actually used), the respective inputs being doubled horizontally, the respective vertical outputs being summed in the bottom row of Strum modules on the left, some of them mixed with knob parameters.
And thanks, I like getting feedback like this on what can be improved! I just made a labelled version which I actually prefer over what I had, I find it’s very clear now what every knob does, and for reference I included a picture of the patch matrix. I tried label modules for that too but it takes up too much space and in the end isn’t very readable.
EMS VCS3 GUI INIT Patch Labelled.vcv (163.8 KB)
I hope this makes for a lot more usable instrument!