My Harmony Engine only outputs in mono, on the left side. The panning function is completely shut off. anyone else have this issue?

You need to have a mono track for a mono signal and a stereo track for a stereo signal. This is why you are seeing a one sided track, because you are recording a mono signal onto a stereo track. Fix this and you'll fix your issue. Vocals are Mono, not stereo, unless you are using 2 microphones to record vocals and that is unusual
 
1 mic = mono signal, 2 mic's = stereo signal
 
Your Welcome,
CJ