Hey, ferram; think I found a good bug for ya.
I'm using the latest version from CKAN, but I've also tested it from the latest code you've got posted on the master branch of GitHub.
Symptoms:
No body drag/lift.
The wing based aerodynamics calculations appear to be working just fine, but the values of L and D reported in the FAR Flight Data interface is NaN in all instances that I launch a craft. I'm using 1.0.5. I've removed all mods with the exception of FerramAerospaceResearch and ModularFlightIntegrator on x64 linux.
Repro steps:
Go to either VAB or SPH.
Grab an OKTO Probe Core. Slap some monoprop on it, and a bunch of Puff's (NOTE: the exact parts don't seem to be relevant; Wings/CtrlSurfaces will still work as wings/CtrlSurfaces, but parts that normally generate body lift seem to be effected[i.e. Mk2Spaceplane parts])
Launch
Note that once on the launchpad/runway, if you enable the Flt Data through FAR interface, L/D and V*L\D should be 0.0000
Stage
Once the vessel is in flight, L/D will register as NaN as will V*L/D
If you enable the Aerodynamics overlay, there will be no increase in magnitude of either the Lift or Drag vectors, so it's not just the GUI reporting an uninitialized value while the calculations are still happening in the background.
I've got the Player.log available if you'd like me to PM it to you. But I haven't been able to find any significant exceptions coming from the FAR stack, but something is clearly up here.