I'm using the release 9444, and automation for workers appears to shut itself off every turn - every worker not currently engaged in actually doing something pops up requesting instructions. (They're fine if they're actually carrying out some function; they'll complete building whatever tile improvement is in the works. But once the tile improvement is done, the worker comes back up as needing direction.) As for missionaries, I don't know (yet) if they still have the automation problem - my current game is about three or four techs short of me actually being able to build them. But the last game I played had a slightly different problem automating missionaries - the first one automated in a turn would head for the nearest city it could spread the religion to, and all the rest would sit around as if there were no available targets. Once the active missionary finished, the next missionary would pick a target and go, and the rest would sit around. I recall the problem was mentioned a few weeks back, but hadn't heard if there had been anything implemented since.