There are hard line stances against cut scenes ("cheating"!), Kojima considering them a natural outlet for all the movies he watched, and developers considering them one of many useful tools in this new Critical Path video.
I think Cliff Bleszinski makes a great point at the end: if there is a way you can develop a scene to remain interactive, it's probably worth doing because that's what videogames do so well.
Also, always nice to be reminded of Resident Evil dialogue. Hah.