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Troubleshoot Intune Enrolment Failures Post-Connector Server Switch

Troubleshoot Intune Enrolment Failures Post-Connector Server Switch

Written By Anoop C Nair
Last Updated September 4, 2025
Posted In Intune
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Let’s discuss Troubleshoot Intune Enrolment Failures Post-Connector Server Switch. Microsoft Intune admins faced issue while migrating Intune connector to new server. Due to this issue admins faces enrollment failure which is shown on Intune Portal.

Here, admin moved their Intune Connector to a new server. The new server name has already been showing in the Microsoft Intune Admin Centre as “active” and it’s healthy, latest version and syncing since it was installed on the new Intune Connector server.

In this scenario enrollment failure issue occurred due to old Intune Connector server shut downing for decommissioning. After the old Intune Connector server back up then enrolments went ahead again successfully.

When admin check the Windows Application logs I see the logs for the successful enrolments on the correct server, the new one. In this blog post I would like to share troubleshooting steps of Intune Enrolment Failures Post-Connector Server Switch. I will also share reasons and after effects of this issue.

Patch My PC
Troubleshoot Intune Enrolment Failures Post-Connector Server Switch - Fig.1
Troubleshoot Intune Enrolment Failures Post-Connector Server Switch – Fig.1

Troubleshoot Intune Enrolment Failures Post-Connector Server Switch

When the Admin check the certs now on old and new Intune server. They look the same, except for the “valid from” dates, but that’s expected. When Admin moved over to the new Intune server the old Intune connector was uninstalled from the old server to clean it up. The following are the image of old connector server.

Troubleshoot Intune Enrolment Failures Post-Connector Server Switch - Fig.2 - Creds to MS
Troubleshoot Intune Enrolment Failures Post-Connector Server Switch – Fig.2 – Creds to MS

But yesterday when we finally shutdown the old Intune Connector server the enrolments stopped working. The below screenshot shows the image of New Connector server.

Troubleshoot Intune Enrolment Failures Post-Connector Server Switch - Fig.3 - Creds to MS
Troubleshoot Intune Enrolment Failures Post-Connector Server Switch – Fig.3 – Creds to MS

Reasons of Issue

There are many reasons behind Enrolment Failures Post-Connector Server Switch. The mai reason is that, old connector was removed from the Intune Admin Center, its DNS record and possibly Active Directory Service Connection Point (SCP) entries still exist. The following table shows the other reasons.

ReasonsDetails
Connector Installation Cache or Registry RemnantsWhile the Intune Admin Centre shows the new server as active and the old one removed, there may still be cached entries at the device level or within the Connector installation itself that need manual cleanup.
OU Placement in Active DirectoryThe old server was in the SERVERS OU, while the new one was placed in the COMPUTERS OU.
Certificate or Token DependenciesDevices that started enrolment before the switch might still be holding enrolment information pointing to the old connector until the process completes.
Troubleshoot Intune Enrolment Failures Post-Connector Server Switch – Table.1

After Effects of this Issue

When this issue occured, users face some after effects. Devices fail to enroll unless the old server is powered on, halting Autopilot provisioning and delaying onboarding. End users may receive devices that aren’t fully configured or domain-joined, impacting productivity.

Fixes for Intune Enrolment Failures

Some admins suggest resolution steps. Mr. Dionysis_K suggests some troubleshooting steps for this issue. These steps are Recommended Actions which help to resolve the issue. Look at the below steps.

  • Check AD Service Connection Points (SCP) for any lingering references to the old server.
  • Verify DNS records / CNAMEs that may still point to the old machine.
  • Review event logs on both servers during enrolment to confirm which connector is being called.
  • Reinstall or repair the Intune Connector on the new server to force refresh of all references.
  • After confirming cleanup, decommission the old server again and test with a new device enrolment.

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Author

Anoop C Nair has been Microsoft MVP for 10 consecutive years from 2015 onwards. He is a Workplace Solution Architect with more than 22+ years of experience in Workplace technologies. He is a Blogger, Speaker, and Local User Group Community leader. His primary focus is on Device Management technologies like SCCM and Intune. He writes about technologies like Intune, SCCM,  Windows, Cloud PC,  Windows, Entra, Microsoft Security, Career, etc.

Written by

Anoop C Nair is Workplace Technology solution architect with 25+ years of experience in global enterprise organizations such as JP Morgan, Capgemini, etc. Microsoft Certified Trainer. Microsoft MVP from 2015 onwards for consecutive 11+ years! He also conducts Intune and modern workplace tech training for enterprise organizations. He is Blogger, Speaker, and Founder of HTMD Community and HTMD Conference. His main focus is on Device Management technologies like Intune, Windows, Cloud PC. He writes about technologies like Intune, SCCM, Windows, Cloud PC, Windows, Entra, Microsoft Security.

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