Hello @Tadeáš Janků
Your Windows Server 2025 build is new enough, but there is an important distinction: ML-DSA support in AD CS requires Windows Server 2025 with the May 2026 security update (KB5087539) or later, and Microsoft’s documented ML-DSA CA deployment procedure isn't simply selecting ML-DSA from the traditional Server Manager AD CS configuration wizard.
Microsoft now supports ML-DSA-44, ML-DSA-65, and ML-DSA-87 for newly deployed Root, Subordinate, Enterprise, and Standalone CAs. It also requires CNG Key Storage Providers; legacy CSPs aren't supported.
So the fact that the command-line configuration works while the Server Manager wizard doesn't expose ML-DSA doesn't necessarily mean your OS lacks PQC support. Follow Microsoft's dedicated “Configure a certification authority to use ML-DSA” procedure rather than the conventional AD CS wizard.
Also note that Microsoft explicitly states that an ML-DSA CA must be newly installed; you can't migrate an existing CA in place to ML-DSA.
References:
Microsoft - Configure a CA to use ML-DSA
Microsoft - ML-DSA support in AD CS
So don't troubleshoot the missing Server Manager selection as a cryptographic-provider failure yet. If Microsoft's documented ML-DSA command-line procedure succeeds, the underlying platform support is present; the GUI simply may not expose the new PQC configuration path.
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