I think corn based ethanol is bad. Still, I look at it and other bio fuels as stepping stones or intern steps. For ethanol, I would say cellulose production or other waste stock. Possibly waste from biodiesel production.
For biodiesel, I hear rapeseed (canola oil) is a bit better than soy oil. Still, I think if you mechanically press out the oil is soy bean, you can still use the mash for feed. It give less yield than chemical processes. I think if alge porduction will work, than there's at least a partial answer.
As far a Brazilian sugar cane or Jathropa from Indonesia, I question what the enviromental impact is from rain forest devistation.
Tom