I've been warning people away from the lessons in FS9 for years- the theory is all there, but there's something screwy about how the AI behaves.
Don't worry about the silly little certificate; even in real life it doesn't mean you have it all down cold.

As Sean said, you're best off learning the gist of the maneuvers, then practicing on your own. How do you know when you've done a steep turn right? Constant bank, constant altitude, and the ball at least touching one of the lines. Passing the checkride doesn't teach you that- you have to practice.