I'm sure we all knew something like this was coming: Slashdot pointed me to an article in Wired about the abuse of the Mission Architect in City of Heroes. The forums appear to have exploded (a post trying to clarify what was going on had 350 pages of responses).
What should be clear is that manually policing these missions will never work. I don't know what will, honestly - scripts to detect certain behaviour, maybe? In the immortal words of whoever said it first, 'this is why we never have anything nice!'