I'm personally wondering why it's still there because it causes fragmentation issues when it's turned on.
Yep.
I should add that the "File Sorting" feature should be turned OFF before running the OS first time after a fresh format, because when the file sorting runs (at boot or after a reset) it destroys the file system.
Do the following:
1. Copy the new OS to the SD, and run the new OS first time (even without ROMS) on the NES.
2. Go to the options screen (press Select) and turn "file sorting" OFF, reset the NES.
3. Power Off the NES, remove SD card, connect it to your PC.
4. Format the SD (FAT32 4kb) and copy the OS+ROMS folders to the SD together (important),, do not delete or add anything to the SD after that.
This way the OS has "file Sorting"option turned OFF before you run the new OS first time, this has to be done with each firmware update.
Do NOT turn file sorting On... ever.
The settings are stored on the EDN8 memory and backed by the Battery, so this procedure is important to do if you have SD errors.
I would remove the "file sorting" option completely from the OS because it causes more trouble than good.