I have just run a few tests, adding an autoresponder to a mailbox and then checking the job queue and confirm they aren't being added. I also checked the system-log which simply shows:
2011-03-10 16:28 srv.xyz.com Debug Remove Lock: /usr/local/ispconfig/server/temp/.ispconfig_lock
2011-03-10 16:28 srv.xyz.com Debug No Updated records found, starting only the core.
2011-03-10 16:28 srv.xyz.com Debug Set Lock: /usr/local/ispconfig/server/temp/.ispconfig_lock
so it doesn't look as though I'm just being slow and the job is processing.
What does happen is the change appears to get written to the ISPConfig database as the change is shown when I go back to the email account in question.