Install SSL certificate programmatically using Microsoft.Web.Administration

There is a method overload for adding Bindings that will add the certificate to HTTP.sys correctly, see: http://msdn.microsoft.com/en-us/library/bb355650(v=VS.90).aspx

Optionally you can actually set the binding settings:

binding.CertificateHash and binding.CertificateStoreName and when commiting it will register correctly with HTTP.sys: http://msdn.microsoft.com/en-us/library/microsoft.web.administration.binding_properties(v=VS.90).aspx

The Bindings.Add() method has an overload for passing in the SSL certificate. If you already have a SSL certificate, you can select it from the SSL certificate store like this:

var store = new X509Store(StoreName.My, StoreLocation.LocalMachine);
store.Open(OpenFlags.OpenExistingOnly);
var certificate = store.Certificates.Find(X509FindType.FindByThumbprint, the thumbprint for the key", true);

var site = _mgr.Sites[name];
site.Bindings.Add("*:4043:", certificate[0].GetCertHash(), "MY");

Once you have run the code, you can check that it has worked by running this from the command line:

netsh http show sslcert