Don't use the wireless assistant to connect, it is quite buggy and will among other things drop your connection often. Use the command line to connect instead as it will guarantee you a reliable connection.
You will need to use the windows drivers along with NDISwrapper to be able to connect to WPA/WPA2 encrypted networks with your Alfa card. For a short tutorial on how to configure this take a look at the following thread: http://forums.remote-exploit.org/showthread.php?t=15497
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