RDS 'HA' Connection Brokers with SQL - Powershell to manage Collecitons/RemoteApps or Server Manager?

Hi Guys

I am running a 2012R2 RDS environment with 'HA' Connection Brokers with SQL in the background hosting the RDS DB. All working nicely. What I have noticed however is that if I use the 'Active' Broker Server Manager (GUI) to update Collection or RemoteApp settings, I seem to get inconsistent results. Before I give a couple of example, What is the best practice for updating Collection or RemoteApp settings in an HA Broker/SQL enviroment? GUI or Powershell? Or should the both give exactly the same result?

Thanks!