The FFmpeg function I mentioned does not use this info. So, this is basically our only additional logic on top of it. It was added to address a bug report here. There is nothing you can do to change Shotcut unless you modify the source code of MLT and build it yourself. Instead of transcode you can remux the file so with ffmpeg on the command line so that it no longer has this special metadata. Shotcut includes the ffmpeg executable. Like this
ffmpeg -i PXL_20230108_142208704.mp4 -c copy -map_metadata -1 PXL_20230108_142208704-no-metadata.mp4