Deploy ASP.NET MVC Web Application is similar to deploy ASP.NET Web Forms. Azure Multi App has MVC application called MvcSample that user can use to test it.
Steps:
Compile AzureMultiApp solution.
Publish web application to file directory.
Zip published files.
Upload generated file to azureapps blob container.
Deploy application using admin tool
Open admin tool: .cloudapp.net:81">http://<youazureservice>.cloudapp.net:81
Test application
http://<youazureservice>.cloudapp.net/<youappname>