I think that many computer programs suffer from this, especially design applications. For example, take Photoshop, there is just so much that it can do that new users can be confused when they first open it. Just learning where each function is and how to use them takes alot of time. Especially when some menus have sub menus, or a tool has specific features or settings other than the default mode.
What makes it worse is that Adobe has designed their interfaces in other similar programs such as Illustrator and Flash to look about the same. If you have to use more than one program, which many designers do, then just figuring out which function goes to which program can be hard to remember when each program has so many different features.