When I was setting up Deluge to run headless on my linux server the deluge-web wasn't saving any settings and nothing was working. Turned out to be an easy fix if you know how.

The problem was the that the web-ui wasn't auto connecting to the deluged backend. This caused the connection manager to always pop up.

Anyhow, assuming your web-ui and deluged are running on the same machine edit the web.conf file and make sure that default_daemon is populated.

# /var/lib/deluge/config/web.conf -- your path will likely be different
...
"default_daemon": "localhost:58846",
...