For Skype for Business 2015

Make sure your version of Office 2013 is Greater than  15.0.4625.1000

You have the following registry key 

Install Skype for Business Online, Windows PowerShell Module:
https://www.microsoft.com/en-us/download/details.aspx?id=39366

After installing this I had trouble including the modules via : Import-Module SkypeOnlineConnector with the error

Import-Module : The specified module ‘SkypeOnlineConnector’ was not loaded because no valid

Skype for Business management shell installs in this location : C:\Program Files\Common Files\Skype for Business Online\Modules\

I used the below in Powershell to insert the .psd1 manually into my powershell

Import-Module -Name “C:\Program Files\Common Files\Skype for Business Online\Modules\SkypeOnlineConnector” -Verbose

Import-Module -Name “C:\Program Files\Common Files\Skype for Business Online\Modules\LyncOnlineConnector” -Verbose

This will still give the error Get-CsOAuthConfiguration : The term ‘Get-CsOAuthConfiguration’ is not recognized as the name of a cmdlet

Sign into 365 with your creds

$cred = Get-Credential

$session = New-CsOnlineSession -Credential $cred -Verbose

Import-PSSession -Session $session

I was then able to run

Set-CsOAuthConfiguration -ClientAdalAuthOverride Allowed

For Skype for Business 2016

For Skype for Business or Lync 2013 clients 16.0*:

HKEY_CURRENT_USER\Software\Policies\Microsoft\Office\16.0\Lync

Then, apply the AllowAdalForNonLyncIndependentOfLync registry key setting:

“AllowAdalForNonLyncIndependentOfLync”=dword:00000001