Hello! I`m really impressed with PDFtoMusic. I still have the beta version 0.1.6, and maybe this problem has been solved. This file: http://www.stetsenko.com/Compositions/PDF/Ein%20Keloheinu.pdf don`t display the note fonts in PDFtoMusic, therefore there's no good recognition. In Adobe Reader it does display right.
The problem is related to a kind of embeded font PDFtoMusic don't manage yet : fontCIDType0 type, certainly a compressed version (fontCIDType0C). This is the first time I encountered this font in a PDF, but thanks to your sample, I 'll try to manage it. If you are other PDF sample they are welcome...
I see that in the time it took me to analyze the situation (I know something about fonts), Didier already responded. Indeed, the problem has to do with how the font is embedded.