Perhaps ws_ftp does something special to keep the connection alive, I don't know what it could be. If you could find out we can try to add the same feature to FlashFXP.
As for the transfer speed I can't explain the difference, FlashFXP uses streaming sockets, data is continually sent and should not appear in bursts as you have described.
The option mxxcon suggested should be used with caution, it is an experimental feature that can often cause more problems. If you start to encounter problems after enabling this option be sure to disable it.
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