Deploy MSI using Intune Win32 App Method

This blog post explores deploying an MSI Installer-based application package using the Windows app (Win32) deployment method. We’ll target Entra Joined devices that are already enrolled in Intune. To illustrate the process, we’ll use an example application called eSigner.

Typically, the preferred method for deploying MSI applications is to use the “Line-of-business app” feature available on the Intune admin center. However, this tutorial will illustrate the process using the Win32 app deployment method for MSI based apps.

STEP 1 – Create .Intunewin file

Follow the steps below to create a .intunewin file.

  • Create an empty folder and copy the MSI Setup (esigner.msi) Installer into that folder.
  • Create Two PowerShell scripts called Install.ps1 and Uninstall.ps1 in the location where you copied the MSI Installer.
  • Download Microsoft Win32 Content Prep Tool, It is a zip file therefore extract its contents into a folder.
  • Create an empty folder, for example, C:\output, or anywhere else.
  • Repackage the esigner.msi file to .intunewin using IntuneWinAppUtil.exe in the Microsoft Win32 Content Prep Tool.


  • Copy the below line of code in Install.ps1 file.


msiexec.exe /i eSigner.msi /qn


To uninstall any MSI application using the command line, you will require its UninstallString value from the registry and use it to remove the app from the device.

For demo purposes, we are using the eSigner MSI application; I have located its UninstallString at HKEY_LOCAL_MACHINE\Software\Microsoft\Windows\CurrentVersion\Uninstall registry location.

The eSigner MSI app installs three separate components, so I found three Uninstallstrings in the registry for this application. We will use all of the Uninstallstrings in our Powershell script to remove the app.

UninstallString registry
UninstallString registry

Once you find your application’s UninstallString, you can replace it in the below Powershell Script. If you have only one UninstallString, remove the second and third lines and start only one msiexec.exe process.

Start-Process "C:\Windows\System32\msiexec.exe" -ArgumentList "/x {167F8EE9-83CE-471C-A7D1-BC777F0A8638} /quiet /noreboot" -Wait -NoNewWindow

Start-Process "C:\Windows\System32\msiexec.exe" -ArgumentList "/x {3a06e0d8-7b7c-4044-bf75-2817fd4384aa} /quiet /noreboot" -Wait -NoNewWindow

Start-Process "C:\Windows\System32\msiexec.exe" -ArgumentList "/x {ABBA3283-FE97-4223-BE77-281D85A8CB6D} /quiet /noreboot" -Wait -NoNewWindow
  • Launch the command prompt as administrator, change the current prompt location to where the Microsoft Win32 Content Prep Tool is downloaded, and run the below command.
IntuneWinAppUtil.exe -c <setup_folder> -s <setup_file> -o <output_folder>
  • <setup_folder> = Keep your MSI file and Powershell script in one folder and provide the location of that folder.
  • <setup_file> = Install.ps1
  • <output_folder> = Create an Empty folder somewhere and provide that location.


IntuneWinAppUtil.exe -c C:\temp\eSigner -s Install.ps1 -o C:\output

Once you run the above command, it will create a .intunewin file in the C:\output directory. We will use this file to deploy the package on End-User Machines.

.intunewin file
.Intunewin file created successfully

For more detailed information about creating .Intunewin file, refer to the blog post: How to create an IntuneWin file.

STEP 2 – Create App deployment

  • Sign in to the Intune Admin Center
  • Click on Apps and then click on All Apps
  • Click on + Add and Select Windows app (Win32) from the app type
Select Windows app (Win32) app deployment method
Select the Windows app (Win32) app deployment method
  • Click on Select app package file to select the .intunewin file package created earlier.
Select app package file
Select app package file
  • Select App package file. Browse to the location of .intunewin file to select and click on OK.
Browse to .Intunewin file created in previous steps
Browse to .Intunewin file created in previous steps

App Information

After clicking on OK, you will be able to find an App Information page. This will provide a page to Update the Information about the Application. On this page, enter the name of the Publisher. Click on Next from your App Information page.


Provide the install command and uninstall command.

  • Install Command:
powershell.exe -Executionpolicy Bypass -File .\Install.ps1
  • Uninstall Command:
powershell.exe -Executionpolicy Bypass -File .\Uninstall.ps1
  • Install behaviour: System
  • Device restart behaviour: No specific action
Install and Uninstall Commands for deploying MSI using Win32 app deployment method
Install and Uninstall Commands for deploying MSI using Win32 app deployment method


You can specify the requirements that devices must meet to deploy the app. If your devices are a mix of 32-bit and 64-bit types, check the boxes for 32-bit and 64-bit in the Operating system architecture drop-down. Otherwise, go with 64-bit.

  • Operating System Architecture: Select 64-bit
  • Minimum operating system: Select according to the operating system version used in your environment.
Provide Requirements / Conditions to Install this application
Provide Requirements / Conditions to Install this application

Detection Rules

  • Rules Format: Select Manually configure detection rules
  • Rule Type: File
  • Path: C:\Program Files (x86)\
  • File or Folder: Gemalto
  • Detection Method: File or Folder Exits
Detection rule for deploying MSI app using Win32 app deployment method
Detection rule for deploying MSI app using Win32 app deployment method


Click on Add group to add an Azure AD group containing users or devices. You can also click on Add all users or Add all devices.

Assign application to Azure AD group
Assign application to Azure AD group

Review + create

Review the deployment and click on Create.

STEP 3 – Monitor deployment progress

You can follow below steps to monitor the installation:

From the Microsoft Intune admin center >Apps > All apps. Click on the deployment and check the Overview page to show the deployment status.

Monitoring status of deployment from Intune admin center
Monitoring the status of deployment from the Intune admin center


Unable to change the Install Behaviour while creating an app in Intune

If you are working with an MSI installer and using the Line-of-Business app or Win32 app deployment method, you may encounter a situation where the “Install behavior” option is greyed out and cannot be changed. This behavior is typically due to the nature of the MSI file, which may not allow deployment in either System Context or User Context, and the option is pre-populated based on the MSI file’s behavior.

If you cannot deploy an MSI application due to the limitations of the Install behavior, you can follow the steps in the blog post. A helpful tip is to create your .intunewin package using an “Install.ps1” script as your setup file, instead of the MSI installer file. You can use the IntuneWinAppUtil.exe tool with the following command:

IntuneWinAppUtil.exe -c C:\temp\eSigner -s Install.ps1 -o C:\output.

Unable to change the Install Behaviour  Intune App
Unable to change the Install Behaviour Intune App


To deploy MSI applications in Intune, use the Line-of-Business app method. If you encounter issues, you can repackage the app as a .intunewin file and deploy it using PowerShell scripts. Win32 app deployment is handy for customizing installations, such as performing pre-installation checks or running post-installation scripts. Some MSIs may not install in the System Context, but repackaging as .intunewin with an Install.ps1 setup file can help change the Install Behavior for Intune deployment.

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