Microsoft is doing a good job in creating all products powershell compatible, App-V 5.0 is well integrated to Windows Server 2012 if you add the specified cmdlets, then you can add the virtualized applications on RemoteApp using regular method as publishing applications. If you check out the tutorial you can view how it is done.
The Cmdlets witch are used are these
Add-AppvClientPackage -Path "\\appvsrv\Content$\OpenOffice 3\OpenOffice 3.appv"
Publish-AppvClientPackage -Name "OpenOffice 3" -Global
Yes, App-V 5.0 fits perfect in the new Windows Reimagined by using powershell commands. But if you have lot of Remote Desktop Services servers you would probably want to think about how you can publish the applications using powershell remotely or automatic.