It seems Foobar is adding clicky noise sounds to a file (wav at least) if 'Stop after current' is used.

Here is a test file.

I've tested the file in other applications and there are no issues.

EDIT: I'm pretty sure it's an Equalizer issue. I disabled it and now the noice is gone.

EDIT2: Equalizer ON and all bars at 0. Noice is back.