I'm divided on the matter as well to some degrees. The "flagging" option is more than just flagging and also serves as a down vote function.
On one hand people may use these options however they so choose. On the other hand there does appear to be some consequences of certain use cases. Hopefully we may find solutions that will help to minimize such consequences and better learn to make the best of things together.
As it seems, and according to the post I just came across it wasn't just a "certain use cases" - it was another "experiment" or even almost the whole flagging movement!