It it asking you if you want to run even though it found errors in the project. First, what are the errors and can you fix them easily? Eclipse gives pretty good error messages. If the errors are from validation, turn them off in the project settings, then try running the project again.
Otherwise, double check that you are using the exact code from the tutorial. Copy the code from Google and save it into a separate file. Then select your file, and the new file, right-click on the two files and use Eclipe's file-compare to show you if you missed anything.
[edit] You could install the EE version to a different directory. Different versions of Eclipse do play nice with each other, they're just huge. Do not import your project into the EE workspace. It will come across as a plain Java project and you need a Web project. Create a new Web/JSP project and then copy the files over.