After creating a new pairing, I stopped the daemon through the webapp while it was syncing. The webapp shut down and was no longer accessible, but git-annex continued running in the background, along with git-annex-shell, and they continued to run new transfers with new rsync processes. This continued until I killed them all.
I expected that when I stopped the daemon in the webapp, all git-annex processes and all transfers would stop.
Using the 20131101 tarball.
I've checked, and shutting down the daemon does cause it to stop any transfers it is running.
However, this does not stop other transfers initiated by the other paired computer.
I'm ambivilant about whether local pairing should only allow transfers when both daemons are running.