Set the default method for Citrix Reciver to use Pass-Through Authentication first.

Set-CitrixReciverSSON.ps1

<#
.SYNOPSIS
    Sets Single Sign On Option as the default sign on method to Pass-Through Authentication.
.DESCRIPTION
    Exports the Configuration Model 000 Registry Binary Key.
    Converts the Binary to ASCII and then to an Xml Object.
    Using the Xml Class Methods, it modifes the 'LogonMethod' Value to 'sson'.
    If the 'LogonMethod' Node does not exist, it will be created and the Value set to 'sson'.
    Commits the changes, if there where any back to the registry.
.EXAMPLE
    Set-CitrixReceiverSSON
.EXAMPLE
    Set-CitrixReceiverSSON -ComputerName "MyComputer.mydomain.org"
.NOTES
    This is useful when the prompt user authentication method is default.
    At a minimum a logon and logoff is requried to complete this process, reboot is recommended.
    Framework Credit to Remko Weijnen
.LINK
    http://www.remkoweijnen.nl/blog/2012/02/13/scripting-citrix-online-plugin-settings
    http://support.citrix.com/article/CTX123150 
    http://dotps1.github.io
#>
function Set-CitrixReceiverSSON
{
    [CmdletBinding()]
    [OutputType([Void])]
    param
    (
        # ComputerName, Type String, Computer Name to to set value on.
        [Parameter(Position = 0)]
        [ValidateScript({ if (-not (Test-Connection -ComputerName $_ -Quiet -Count 2)) { throw "Failed to connect to $_.  Please ensure the system is available." } else { $true } })]
        [String]
        $ComputerName = $env:COMPUTERNAME
    )

    try
    {
        $regKey = ([Microsoft.Win32.RegistryKey]::OpenRemoteBaseKey("CurrentUser", $ComputerName)).OpenSubKey("Software\Citrix\PNAgent", $true)
        $regValue = $regKey.GetValue("Configuration Model 000")
    }
    catch
    {
        throw "The Citrix PNA Agent Registry Key does not exist on $ComputerName."
    }
    $data = %{ [RegEx]::Replace([System.Text.ASCIIEncoding]::ASCII.GetString($regValue),'<([^>]+)>',{ $args[0] -replace ' ','_' }) }

    # Add dummy outter rood nodes.
    $data = "<root>$data</root>"

    $xml = [System.Xml.XmlDocument]$data
    $logonMethodValue = ($xml.root.User_Blob.Item | ?{ $_.Key -eq 'LogonMethod' }).Value

    if ($logonMethodValue -eq $null)
    {
        $item = $xml.CreateElement("Item")
        $key = $xml.CreateElement("Key")
        $key.AppendChild($xml.CreateTextNode("LogonMethod")) | Out-Null
        $item.AppendChild($key) | Out-Null

        $itemValue = $xml.CreateElement("Value")
        $itemValue.AppendChild($xml.CreateTextNode("sson")) | Out-Null
        $item.AppendChild($itemValue) | Out-Null
        $xml.root.User_Blob.AppendChild($item) | Out-Null
        $valueModified=$true
    }
    elseif ($logonMethodValue -ne "sson")
    {
        ($xml.root.User_Blob.Item | ?{ $_.Key -eq 'LogonMethod' }).Value = "sson"
        $valueModified = $true
    }

    if ($valueModified)
    {
        $rawData = $xml.root.InnerXml | %{ [regex]::replace($_,'<([^>]+)>',{ $args[0] -replace '_',' ' }) }
        $newValue = [System.Text.ASCIIEncoding]::ASCII.GetBytes($rawData)
        $regKey.SetValue("Configuration Model 000", $newValue)
    }

    $regKey.Close()
}