I think you misunderstood me.
My question is , can we separate MySQL from Kloxo-MR so they run on different hosts?
/etc/my.cnf.d/server.conf is MySQL specific config files, but requires MySQL server to run the same host.
You need modified /etc/my.cnf (for Kloxo-MR 6.5) or /etc/my.cnf.d/server.conf (for Kloxo-MR 7.0).