The biggest and most consistent downside I see with these DNS enhancements is that it prevents filtering at the network level. Querying nameservers is being pushed into applications themselves to support these new features (such as Chrome and Firefox), which bypasses any system resolvers configured on the host. In most cases there is no way to signal from the network that it is not desirable to do this (Firefox being…
The only effective measure is to block outbound network access and require use of a proxy, possibly optimized by allowing direct traffic only from clients with functioning endpoint monitoring agents.