Normally NAT takes care of this, Are you connecting to a FTP server on a port other than 21?
There are two solutions.
1. Preferences / Proxy Tab / Enable passive mode
2. You can tell FlashFXP to listen on your external IP.
Preferences / Proxy Tab / bind local ports to IP.
This will only work if you configure ICS to forward the incoming connections to your machine, I'm not entirely sure how you would do this.
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