We have been having a problem with Server 2012 and Server 2012 R2. If a server is patched through WSUS, we lose the ability to install .NET Framework 3.5 (NET-Framework-Core). If you install from media and install .NET 3.5 right away, we have no problem.
Our systems do not have internet access, and that option is not available to us. We cannot figure out what patch is causing the problem. I have seen others report that MS14-046 might be the issue, but when I remove that patch it doesn't fix it.
It takes hours to patch a system (nobody has time for that). Is there a work around for this issue? We keep having to reload systems because we tend to want our base OS patched before we do anything else with it.