No fixed method. All depends on the purpose, the instrument(s) in question, the genre etc. In the good old days, I use pencil and paper but mainly for full orchestral transcriptions. Good ear training as a result. I don't do as much transcriptions nowadays, but when I do do it, I still rely sometimes on pencil and paper. Otherwise, I use Finale.
For drums, I can see why pencil and paper is a pain. Probably easier with e-drums and midi trigger to get it down on software. Most DAW has drums/percussion notations.