Keep in mind you will need some sort of A/D convertor between your mics/preamp and the MD.
In "stealthy" situations I just run my Core Sounds directly into my JB3. You'd do the same with the MD, but you wouldn't need a battery box.
What kind of mics do you have?
And my $.02 is that I'd still prefer the MD over the MicroTrack due to the MT's poor performance going mic in. The only downer is the 80 minute disc change.
Have fun taping!
MIKE B