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The problem was happening with several SoundFonts (FluidR3, MusicaTheoria) that I used before.
I've already tried to remove the config -- didn't help either.

Downloaded the source tarball from SourceForge, rebuilt and the problem was gone!

This looks like a distro's problem now, but hard to tell where have they screwed up. Amazingly enough it's two (slightly) different distros.

Thanks a lot for the great SW!