Hello there, don't know if this is of any help for you.
Cyberduck froze after closing the donate window with "later" (ok, maybe it's not a bug but a feature I'm calling in about ;-) after it had probably waited there to continue closing for 24h or so. I clicked it close in the dock and only today saw, it's still active there somewhere in the back of all these windows and it was, waiting, patiently, at the donate pop up. After that was clicked away, I then tried to click close, even move around I think, a transfer window that was still open, but it would not even get focus and not move. So here is the dump, for all it's worth.
Thanks for the great tool. I use it rarely but it's become a regular. No I haven't donated yet, I guess I should.
And, well, it was complicated to post this. Spam protection and such.