| You'll likely have to repeat your coursework at another school if you go to get a PhD after getting a MS at your undergrad school. You might be able to place out of a class or two, but I wouldn't count on it. I think the combined BS/MS degree is only really worthwhile if you want to go into industry or if you can finish it in 4 years.
brad97z, it depends on each school and program. I know one of my friends in CS at CMU was a top student, but he didn't get admitted to the PhD program because the program he wanted to go into did accept CMU undergrads. On the other hand, I know a number of people here at Caltech that did their undergrad and have stayed on to do their graduate studies. I also had a standing offer at my undergrad school to attend there if I wasn't satisfied with any of my alternatives. | 
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