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Post here if you experience file transfer problems or unexpected errors.
I am able to connect to the FTP server that is running off of FileZilla server.

When I go to even put a file on there, or get the list of the directory it just keeps erroring out eith Error# 16002:
A connection attempt failed because the connected party did not properly respond after a period of time, or established connection failed because connected host has failed to respond.

And I know it works right, because it works fine with FlashFXP and I can transfer files etc.

It seems to be a firewall issue. Could you send us the complete output with verbose mode enabled (see lower right corner in ScriptFTP)

I don't know why FlashFXP worked in that case. The error you reported is the one ScriptFTP throws when it cannot connect to the server port the FTP server will use to transfer the file.