Hi tlc12ie,
may I ask you what's ur MD device? And what's your original recording from? Because once you recorded digitaly a track to the MiniDisc there a serial copy protection that prevents you from doing an other generation digital copy through digital output.
If you recorded from analog source then all track marks should have been written right and if the synchr feature turned on on the RCD-W100 the recording should start/stop along with the MD player.