MS-DOS is that immutable standard of the past which reached maximum maturity in 2001.
FreeDOS was originally an alternative, but is for the future now.
I like FreeDOS but when companies started to distribute their device drivers or software on floppies or CDROMs that were formatted using FreeDOS, it was not pretty.
Often there was no successful access or booting to the FAT volume, but all you needed to do was SYS the writable floppy with MS-DOS, or go through the ordeal of "ripping" the CD to correctly SYS its contents.
Regardless of the '90's or today I would recommend very strong familiarity with MS-DOS for some time, there is really nothing new there, before moving forward to include FreeDOS in your toolbox.
This is how it happened organically when FreeDOS was first emerging.