@privateer -- yep doing a merge of common/waypoints_room_QR2.gr2 and waypoints_room_QR2.chr is fine in both goblin and SH5 game.
Adding the extra sapiens is fine in game (and goblin) also.
I thought if I could duplicate the waypoint gr2 file and import it I'd essentially end up with clones of the rooms original waypoints. So I copied the waypoint gr2 file and changed the waypoint names with a hex editor. I made a supporting CHR file which matched the waypoint names.
I can use these clone GR2 and CHR file in game IN PLACE OF the original GR2 and CHR but I can't find a way to get BOTH the original and copied GR2/CHR files to open up simultaneously in game.
Maybe it's just a daft route to follow, but I frankly don't know any better