Mind that polygons, regions, etc. may or may not be "unrouted" in the process, and you'll have to delete them separately. (I almost never use the feature, I think most types are removed but polys stick around?) Also mind locked objects if any.
I find it handy to keep some of the initial placement; the arrange-components commands tend to randomize things. I guess if you're going for a complete cold start that's useful, but even a bad (but complete) placement is still a good starting point. But YMMV.
Tim