Personally I have only used the Filezilla FTP client, not their server, but you can find some documentation on their wiki
The thing I would be most concerned about is security. FTP is one of the original means of file transfer that came along with the Internet itself. Along with email and telnet, it is an inherently insecure medium, and anyone in the right place at the right time can intercept your data in transit. I might argue that FTP is even less secure than email, because many email servers now use secure authentication methods for login, whereas FTP (by the nature of the protocol) transmits your username and password over an unencrypted connection.
The Filezilla Wiki has information on setting up additional security for the server (turning it into 'FTPS', which uses SSL/TLS like secure web sites do), but configuring it seems like it might be a bit convoluted (I haven't done it myself, but it seemed a bit involved at first glance)
In my opinion, one of the best ways to access your files remotely would be to use an SFTP server, which uses the *nix SSH2 protocol for security. Wikipedia has a list
of SFTP server software, including some free options that might be easier to set up. I haven't tried it, but from looking at the list, Core FTP looks like it might be worth a look.
I personally use an SSH and SFTP server that I run on my Linux box, and use Filezilla (client) under Windows on my laptop to access my files on the go. If you set up an SFTP server, you should be able to use the Filezilla client to access your server securely.
I also suggest signing up for a free service like DynDNS
, so that you can point your SFTP client software to a hostname that won't change if your home IP address does.
If you have any questions about setting up port forwarding, SFTP, DynDNS, or anything else, fire away! Hope this helps