I did see the big warning labels everywhere. However, there is simply no replacement that is equally fast (protocol 5), easy to use (copyreg) and imports necessary modules when deserializing. So tradeoffs were made.
Most of the security issues are mitigated if you are only running the software internally. But it would be interesting to see a hacker who managed to get into the production systems somehow figure out your RPC scheme and try to craft packets to exploit it instead of going directly for the user/password database.