The Sheen lab in Boston has the best protocols for protoplast. They have been streamlined and work awsome, I have used them several times, they use PEG
I have used PEG to transfect Arabidopsis and tobacco protoplasts. Both worked well. From papers I read, most of them used PEG-mediated method for protoplast transformation. I assume that PEG is more common to be used for protoplast transformation.