Yes, it happens every time for me...

I am only ever using SFTP though (which isn't likely to be the culprit).
Additionally, I am using compiz and am curious if it's possibly some 
interaction between wxwidgets and compiz or what.
This evening I will try using just regular old metacity when trying a large 
transfer, that way we can potentially rule that out.

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https://bugs.launchpad.net/bugs/193340
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