Couple of points:
We no longer use 3D flags from the EDID. There are too many incorrect EDIDs out there to rely on this. Kodi settings are the only thing that affects whether 3D SBS/TAB signalling or frame packed modes are used.
Use “tvservice -s” when playing a video to check whether we are signalling SBS, TAB or FP 3D modes.
Whether a 3D video is output as FP is purely determined by the “Use Full HD modes for 3D” switch. Not by mkv tags or filename tags. You will need a valid 3D tag to get the switch to a 3D mode however (or use the video OSD).