Those orange boxes are the missing assets being shown. They are shown graphically in Surveyor, not as a list. If you want to see the missing assets as a list then you will need to select the route in Content Manager and select List Dependencies - but any missing assets will be shown either as "unknown" If they are from unknown sources or "Available for download" if they are on the DLS.
One option you have is to delete all missing assets - select Delete missing assets from the tools menu, or turn the orabge boxes off by unchecking "Dsplay missing assets" in the display settings menu.