A whole heck of a lot more detail needed. ioFTPD works fine, you start IIS and it stops working? I blame IIS! You stop IIS and things work fine again? If those are the only actions you did (no rebooting in between, etc) then I'm a bit confused as to what would be going on. Firewall setup?
ioFTPD only has a problem with poorly written 3rd party dll libraries that try to track socket connections like netlimiter and nvidia's lame firewall/defender or whatever it's called. uTorrent has the same problems as well with those dll's so it's them, not us.
Other than that, perhaps IIS is consuming all the resources or something. Check the ioFTPD and IIS logs to see if errors are generated...
Also, what version are you using? The connection but no response is a classic lockup issue and from what I can tell seems to have diminished or been fixed in more recent versions of the server. Is this repeatable on demand?
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