Microsoft just released a Management Pack for Exchange 2013 and it couldn’t arrive fast enough 
The installation is simple as pai, download and import via management packs.
You can download the management pack from here –>
This Mangement Pack require the same prerequisites as the previous ones.
- You have one of the following versions of System Center Operations Manager deployed in your organization:
- System Center Operations Manager 2012 RTM or later
- System Center Operations Manager 2007 R2 or later
- You have already deployed SCOM agents to your Exchange Servers. Show me how.
- The SCOM agents on your Exchange Servers are running under the local system account. Show me how.
- The SCOM agents on your Exchange Servers are configured to act as a proxy and discover managed objects on other computers. Show me how.
- Your user account is a member of the Operations Manager Administrators role.
Now if you want to use this in a lab enviroment I always enable proxy roles for all the agents. (Not recommended for a producition because of the security risks)
But it you want to enable this for all agents open SCOM Powershell and run the command
Get-SCOMAgent | where {$_.ProxyingEnabled.Value -eq $False} | Enable-SCOMAgentProxy
This will enable agent proxy for all agents that do not have proxy enabled
The management gives a clean overview of the infrastructure (In my lab enviroment I only have one server which is a CAS and Mailbox server)
Now if I enter health explorer I see all the different objects that are being monitored.
And the list goes on
So far my impression is that the Microsoft Exchange have been good to enter knowledge sources for each monitor.
The Server Helath shows all the different components and which servers they are installed on. 
You can see more about the documentation regarding the management pack here –> http://technet.microsoft.com/en-us/library/dn195908(v=exchg.150).aspx