I have an ASP.NET MVC 2 application.
I have created a new Connect bug here https://connect.microsoft.com/VisualStudio/feedback/details/731303/publish-web-feature-not-including-all-dlls
I've also attached a solution and detailed steps to reproduce this issue. Lets hope this time they won't close it as Can't Reproduce.
Vote for this connect issue if you experience the missing dll problem.