There are an awful lot of nodes in those files, it might be hitting a limit if you are running combinations of a hundred of them.
You could try a couple of different things to get around it…first would be to layout the entire sheet with the designs arranged exactly where you want them, then rasterize the designs (as one large engrave) while leaving the cut lines alone. (That will not add too many Engrave operations to the file, but you can’t shift it around except in total.)
Or just run smaller batches. Make a third of them one color, a third a different color, etc., and process the engraves for those one at a time. (Set the other colors to Ignore when one is running.) The backers are not what is putting the thousands of nodes onto the sheet.
Either of those might work, or just remove a couple of rows or columns to see if you can get the rest to process.