Active Directory Certificate Services
Purpose¶
This document outlines the Microsoft-recommended best practices for deploying a secure, internal-use-only, two-tier Public Key Infrastructure (PKI) using Windows Server 2022 or newer. The PKI supports securing S/MIME email, 802.1X Wi-Fi with NPS, and LDAP over SSL (LDAPS).
CA Deployment Breakdown
The environment will consist of at least 2 virtual machines. For the purposes of this document they will be named LAB-CA-01
and LAB-CA-02
. This stands for "Lab Certificate Authority [01|02]". In a two-tier hierarchy, an offline (you intentionally keep this VM offline) Root CA signs a single "Subordinate" Enterprise CA certificate. The Subordinate CA is domain-joined and handles all certificate requests. Clients trust the PKI via Group Policy and Active Directory integration.
In this case, LAB-CA-01
is the Root CA, while LAB-CA-02
is the Intermediary/Subordinate CA. You can add more than one subordinate CA if you desire more redundancy in your environment. Making them operate together is generally automatic and does not require manual intervention.
Certificate Authority Server Provisioning Assumptions
- OS = Windows Server 2022/2025 bare-metal or as a VM
- You should give it at least 4GB of RAM.
- Change the edition of Windows Server from "Evaluation" to "Standard" via DISM
- Ensure the server is fully updated
- Ensure the server is activated
- Ensure the timezone is correctly configured
- Ensure the hostname is correctly configured
Domain Environment Assumptions
It is assumed that you already have existing infrastructure hosting an Active Directory Domain with at least one domain controller. This document does not outline how to set up a domain controller, you will need to figure that out on your own.
Offline (Non-Domain-Joined) Root CA LAB-CA-01
¶
Role Deployment¶
This is the initial deployment of the root certificate authority, the settings here should be double and triple checked before proceeding through each step.
- Provision a non-domain-joined Windows Server
- This is critical that this device is not domain-joined for security purposes
- Navigate to "Server Manager > Manage > Add Roles and Features"
- Check "Active Directory Certificate Services"
- When prompted to confirm, click the "Add Features" button
- Ensure the "Include management tools (if applicable)" checkbox is checked.
- Click "Next" > "Next" > "Next"
- You will be told that the name of the server cannot be changed after this point, and it will be associated with
WORKGROUP
> This is fine and you can proceed.
- You will be told that the name of the server cannot be changed after this point, and it will be associated with
- Check the boxes for the following role services:
Certification Authority
Certification Authority Web Enrollment
- When prompted to confirm multiple times, click the "Add Features" button
- Ensure the "Include management tools (if applicable)" checkbox is checked.
- There are additional steps such as
Configure AIA and CDP extensions with HTTP paths
andPublish root cert and CRL to AD and internal HTTP
, but these do not apply to an LDAPS-only deployment, and are more meant for websites / webhosting. (current understanding)
- There are additional steps such as
- Click "Next" > "Next" > "Next" > "Install"
- Restart the Server
- Check "Active Directory Certificate Services"
Role Configuration¶
We have a few things we need to configure within the CA to make it ready to handle certificate requests.
- Navigate to "Server Manager > (Alert Flag) > Post-deployment Configuration: Active Directory Certificate Services"
- You will be prompted for an admin user, in this example, you will use the pre-populated
LAB-CA-01\Administrator
- Check the boxes for
Certification Authority
andCertification Authority Web Enrollment
then click "Next" - Check the "Standalone CA" radio box then click "Next"
- Check the "Root CA radio box then click "Next"
- Check the "Create a new private key" radio box then click "Next"
- Click the dropdown menu for "Select a crypotographic provider" and ensure that "RSA#Microsoft Software Key Storage Provider" is selected
- Microsoft Software Key Storage Provider (KSP) is the latest, most flexible provider designed to work with the Cryptography Next Generation (CNG) APIs. It offers better support for modern algorithms and improved security management (such as support for key attestation, better hardware integration, and improved key protection mechanisms).
- Set the key length to
4096
- Set the hash algorithm to
SHA256
- Click "Next"
- Common Name for this CA:
BunnyLab-RootCA
- Distinguished name suffix:
O=Bunny Lab,C=US
- Preview of distinguished name:
CN=BunnyLab-RootCA,O=Bunny Lab,C=US
- Click "Next"
- Specify the validity period:
10 Years
then click "Next" > "Next" > "Configure"
- You will be prompted for an admin user, in this example, you will use the pre-populated
You will see a finalization screen confirming everything we have configured, it should look something like what is seen below:
Field | Value |
---|---|
CA Type | Standalone Root |
Cryptographic provider | RSA#Microsoft Software Key Storage Provider |
Hash Algorithm | SHA256 |
Key Length | 4096 |
Allow Administrator Interaction | Disabled |
Certificate Validity Period | <10 Years from Today> |
Distinguished Name | CN=BunnyLab-RootCA,O=Bunny Lab,C=US |
Certificate Database Location | C:\Windows\system32\CertLog |
Certificate Database Log Location | C:\Windows\system32\CertLog |
Active Directory Certificate Services
If everything went well, you will see that the "Certificate Authority" and "Certification Authority Web Enrollment" both have a status of "Configuration succeeded". At this point, you can click the "Close" button to conclude the Root CA configuration.
Online (Domain-Joined) Subordinate/Intermediary CA LAB-CA-02
¶
Role Deployment¶
Now that we have set up the root certificate authority, we can focus on setting up the subordinate CA.
Enterprise Admin Requirement
When you are setting up the role, you absolutely have to use an "Enterprise" Admin account. This could be a service account like svcCertAdmin
or something similar.
- Navigate to "Server Manager > (Alert Flag) > Post-deployment Configuration: Active Directory Certificate Services"
- Under credentials, enter the username for an Enterprise Admin. (e.g.
BUNNY-LAB\nicole.rappe
) - Click "Next"
- Check the following roles (we will add the rest after setting up the core CA functionality)
Certification Authority
Certification Authority Web Enrollment
- Check the "Enterprise CA" radio box then click "Next"
- Check the "Subordinate CA" radio box then click "Next"
- Check the "Create a new private key" radio box then click "Next"
- Click the dropdown menu for "Select a crypotographic provider" and ensure that "RSA#Microsoft Software Key Storage Provider" is selected
- Microsoft Software Key Storage Provider (KSP) is the latest, most flexible provider designed to work with the Cryptography Next Generation (CNG) APIs. It offers better support for modern algorithms and improved security management (such as support for key attestation, better hardware integration, and improved key protection mechanisms).
- Set the key length to
4096
- Set the hash algorithm to
SHA256
- Click "Next"
- Common Name for this CA:
BunnyLab-SubordinateCA-01
- Distinguished name suffix:
DC=bunny-lab,DC=io
- This will be auto-filled based on the domain that the CA is joined to
- Preview of distinguished name:
CN=BunnyLab-SubordinateCA-01,DC=bunny-lab,DC=io
- Click "Next"
- Select the "Save a certificate request to file on the target machine" radio button
- This will auto-populate the destination to something like "
C:\LAB-CA-02.bunny-lab.io_bunny-lab-LAB-CA-02-CA.req
"
- This will auto-populate the destination to something like "
- Click "Next" > "Next" > "Configure"
- Under credentials, enter the username for an Enterprise Admin. (e.g.
You will see a finalization screen confirming everything we have configured, it should look something like what is seen below:
Field | Value |
---|---|
CA Type | Enterprise Subordinate |
Cryptographic provider | RSA#Microsoft Software Key Storage Provider |
Hash Algorithm | SHA256 |
Key Length | 4096 |
Allow Administrator Interaction | Disabled |
Certificate Validity Period | Determined by the parent CA |
Distinguished Name | CN=BunnyLab-SubordinateCA-01,DC=bunny-lab,DC=io |
Offline Request File Location | C:\LAB-CA-02.bunny-lab.io_bunny-lab-LAB-CA-02-CA.req |
Certificate Database Location | C:\Windows\system32\CertLog |
Certificate Database Log Location | C:\Windows\system32\CertLog |
Pending Certificate Signing Request
You will see a screen telling you that the Certification Authority Web Enrollment was successful but it will give a warning about the Certification Authority. The Active Directory Certificate Services installation is incomplete. To complete the installation, use the request file
Role Configuration¶
At this point, we will need to focus on getting the certificate signing request generated on LAB-CA-02
to LAB-CA-01
(the rootCA), this can be via temporary network access or via a USB flashdrive.
Danger
If using a USB flashdrive is not viable, don't leave the RootCA server on the network any longer than what is absolutely necessary.
- Once the certificate signing request file
C:\LAB-CA-02.bunny-lab.io_bunny-lab-LAB-CA-02-CA.req
is onLAB-CA-01
(RootCA) we can proceed to get it signed. - Navigate to "Server Manager > Tools > Certification Authority"
- Right-click the CA node in the treeview on the left-hand sidebar (e.g.
BunnyLab-RootCA
) - Click on "All Tasks" > "Submit new request..."
- Browse to and select the subordinate CA’s .req file (e.g.
LAB-CA-02.bunny-lab.io_bunny-lab-LAB-CA-02-CA.req
)
- Browse to and select the subordinate CA’s .req file (e.g.
- Click on "BunnyLab-RootCA > Pending Requests
- Right-click the request we just imported, and select "All Tasks > Issue"
- Click on ""BunnyLab-RootCA > Issued Certificates"
- Locate the new subordinate CA certificate, and double-click it.
- Click the "Details" tab
- Click the "Copy to File" button
- Click "Next"
- Choose
DER encoded binary X.509 (.CER)
and save asLAB-CA-02-SubCA.cer
.
- Export the Root CA certificate:
- Right-click the
BunnyLab-RootCA
node > Properties > View Certificate > Details > Copy to File... - Save as
RootCA.cer
- Right-click the
- Right-click the CA node in the treeview on the left-hand sidebar (e.g.
- Copy both
LAB-CA-02-SubCA.cer
(the signed subordinate CA cert) andRootCA.cer
(the root CA cert) to the subordinate CA (LAB-CA-02
), using a secure method (e.g. USB drive). - On
LAB-CA-02
(Subordinate CA), Navigate to "Server Manager > Tools > Certification Authority"- Right-click the CA node in the treeview on the left-hand sidebar (e.g.
BunnyLab-SubordinateCA-01
) - Click on "All Tasks" > "Install CA Certificate"
- Browse to and select
LAB-CA-02-SubCA.cer
(you may need to change the cert file extension filter toX.509 Certificate
) - When prompted for the CA chain or root certificate, browse for and select the
RootCA.cer
you transferred earlier along with theLAB-CA-02-SubCA.cer
- Launch
certsrv.msc
to open the[Certificates - Local Computer]
management window- Right-Click "Trusted Root Certification Authorities" > All Tasks > Import
- Click "Next"
- Browse to the
BunnyLab-RootCA.crl
located on\\LAB-CA-01\CertEnroll\BunnyLab-RootCA.crl
(if the RootCA is temporarily on the network) or copy the file manually via USB drive fromC:\Windows\System32\certsrv\CertEnroll\BunnyLab-RootCA.crl
- Place all certificates in the following store: "Trusted Root Certification Authorities"
- Click "Next" and finish importing the Certificate Revocation List
- Right-Click "Trusted Root Certification Authorities" > All Tasks > Import
- Browse to and select
- Right-click the CA node in the treeview on the left-hand sidebar (e.g.
BunnyLab-SubordinateCA-01
) - Click on "All Tasks" > "Start Service"
- Verify that the CA status is now green (running).
- Right-click the CA node in the treeview on the left-hand sidebar (e.g.
Certificate Template Permissions¶
Lastly, we need to adjust the security permissions of the "Domain Controller Authentication" template so that domain controllers have read permissions to the template.
- Right-Click ""Certificate Templates" > Manage
- Right-click "Domain Controller Authentication" > Properties
- Click on the "Security" tab
- Under the "Domain Controllers" permission, ensure that "Allow:Read" is checked, as well as "Enroll" and "Autoenroll", then click "OK"
- Repeat the above step except for the "Domain Controller" certificate template's properties instead.
Create Auto-Enrollment Group Policy¶
The Certificate Auto-Enrollment Group Policy enables domain-joined devices (computers, including domain controllers) to automatically request, renew, and install certificates from the Enterprise CA (in this case, the Subordinate CA LAB-CA-02
).
Create GPO¶
- Open the Group Policy Management editor on one of your domain controllers, then "Create a GPO in this domain, and link it here" wherever it will be able to target the domain controllers, this may be at the root, or in a specific OU that holds domain controllers. (e.g.
bunny-lab.io\Domain Controllers
)- Name the new GPO something like "Certificate Auto-Enrollment"
- Edit the GPO
- Navigate to "Computer Configuration > Policies > Windows Settings > Security Settings > Public Key Policies"
- Find and open "Certificate Services Client - Auto-Enrollment."
- Set the Configuration Model to "Enabled"
- Check both checkboxes for "Renew expired certificates, update pending certificates, and remove revoked certificates" and "Update certificates that use certificate templates"
- Click "OK"
- Navigate to "Computer Configuration > Policies > Windows Settings > Security Settings > Public Key Policies > Trusted Root Certification Authorities"
- Right-click the "Trusted Root Certification Authorities" folder and select "Import..." > Proceed to browse for the
RootCA.cer
that you previously generated. (copy it to the domain controller if needed from one of the Certificate Authorities) - Proceed to import the certificate, clicking-through all of the prompts and confirmations until it finishes the import.
- Right-click the "Trusted Root Certification Authorities" folder and select "Import..." > Proceed to browse for the
- Navigate to "Computer Configuration > Policies > Windows Settings > Security Settings > Public Key Policies > Intermediate Certification Authorities"
- Right-click the "Trusted Root Certification Authorities" folder and select "Import..." > Proceed to browse for the
LAB-CA-02-SubCA.cer
that you previously generated. (copy it to the domain controller if needed from one of the Certificate Authorities) - Proceed to import the certificate, clicking-through all of the prompts and confirmations until it finishes the import.
- Right-click the "Trusted Root Certification Authorities" folder and select "Import..." > Proceed to browse for the
- Run a
gpupdate /force
on your domain controller(s) and give it a few minutes to pull down their new domain controller certificates
Validate Auto-Enrollment Functionality¶
At this point, you need to check that there is a certificate installed within "Certificates - Local Computer > Personal > Certificates" for "Domain Controller Server Authentication"
- Load the Certificate - Local Machine (
certlm.msc
) and navigate to "Personal > Certificates" > You should see something similar to the following:
Issued To | Issued By | Expiration Date | Intended Purposes | Certificate Template |
---|---|---|---|---|
LAB-DC-01.bunny-lab.io | BunnyLab-SubordinateCA-01 | 7/15/2026 | Directory Service Email Replication | Directory Email Replication |
LAB-DC-01.bunny-lab.io | BunnyLab-SubordinateCA-01 | 7/15/2026 | Client Authentication, Server Authentication, Smart Card Logon | Domain Controller Authentication |
LAB-DC-01.bunny-lab.io | BunnyLab-SubordinateCA-01 | 7/15/2026 | Client Authentication, Server Authentication, Smart Card Logon, KDC Authentication | Kerberos Authentication |
Validate LDAPS Connectivity¶
Lastly, we want to ensure that LDAPS is functioning. By default, once these certs are enrolled on the domain controller(s), LDAPS should just work out of the box. To verify this, you can run this command on any device on the same network as the domain controllers. If it comes back successful like in the following example output, then you are golden:
PS C:\Users\nicole.rappe> Test-NetConnection LAB-DC-01.bunny-lab.io -Port 636
ComputerName : LAB-DC-01.bunny-lab.io
RemoteAddress : 192.168.3.25
RemotePort : 636
InterfaceAlias : Ethernet
SourceAddress : 192.168.3.254
TcpTestSucceeded : True
PS C:\Users\nicole.rappe> Test-NetConnection LAB-DC-02.bunny-lab.io -Port 636
ComputerName : LAB-DC-02.bunny-lab.io
RemoteAddress : 192.168.3.26
RemotePort : 636
InterfaceAlias : Ethernet
SourceAddress : 192.168.3.254
TcpTestSucceeded : True
Successful LDAPS Connectivity
LDAPS should now be functional on your domain controller(s).
Raw Unprocessed/Unimplemented Steps
Publish CRLs regularly, configure overlap periods, and monitor expiration. Enable Delta CRLs on the Subordinate CA, but not on the Root. Security Recommendations
- Harden CA servers; limit access to PKI admins.
- Use BitLocker or HSM for key protection.
- Monitor issuance and renewals with audit logs and scripts.