As part of planning to migrate a large (3000 + VM) SCOM 2012 R2 environment to 2016 we will need to do a bit of agent configuration. I have created two tasks in Our SCOM console to help us add or delete management Groups from the monitored computers (when moving all agents we probably will use some other orchestration). The problem is that you will have to restart the agents HealthService to save new configuration. Since we execute the task/script through the Health service the task will fail when we attempt to restart. You may experience Your task to work, as in you will have the managment Group added, but you will not see any output.
Over the years People have published a lot of scripts that restarts the agents but unfortunately I have not managed to get them to work properly.

Therfore, i am complicating Things…

I created a script which creates a scheduled task set to run in one minute before it expires and deletes. The Whole thing Works perfectly, but there has to be another way?

<#
NAME: Create-SCOMAgentRestartSchedTask.ps1

.DESCRIPTION
    Creates a scheduled task on the computer which will restart scom health service.
    Script is used as agent task within SCOM as a 'hack' to restart agent through the console.
    
.NOTES
    Martin Ehrnst /Intility AS
    www.adatum.no

    Intial release November 16
    Version 1.0


#>

#Do some logging to the Operations Manager Event Log
$api = new-object -comObject MOM.ScriptAPI
$api.LogScriptEvent("Create-SCOMAgentRestartSchedTask.ps1", 1001, 4, "Creating a scheduled task to restart SCOM health service. Task will expire and delete after it's finished.")

$Service = "HealthService"
$Action = New-ScheduledTaskAction -Execute "C:\Windows\System32\WindowsPowerShell\v1.0\powershell.exe" -Argument "Get-Service $Service | restart-service -force"
$run = (Get-Date).AddMinutes(1) # Two minutes from now
$User = 'SYSTEM'
$trigger = New-ScheduledTaskTrigger -Once -At ($run)
$settings = New-ScheduledTaskSettingsSet -DeleteExpiredTaskAfter 00:00:01
Register-ScheduledTask -TaskName "Restart SCOM HealthService" -User $user -InputObject (
  (
    New-ScheduledTask -Action $Action -Trigger $trigger -Settings $settings
) | %{ $_.Triggers[0].EndBoundary = $run.AddMinutes(5).ToString('s') ; $_ })
write-host "created a task to restart $service in one minute"

I know that Microsoft have a recovery action to restart the agent when it is using too much memory and similar, but I haven’t broken Down their code.