Experimenting with this project, deleting the cache.lib triggers detection of the USB_OTG symbol, and two more, led_small and fuse.
Substituting the fuse symbol is causing a new error in the netlist file, the symbol with ref is there, but no net to the pins is assigned. This is odd as the symbol drags attached wires correctly, the standard test for proper wire attachment.
This is on Windows Nightly.
I am experimenting with a simpler design with a complex hierarchy to replicate this on something I can post as a bug