I think a travel agent should be able to arrange such a trip. Unless you know the language, meeting locals might be tough in out of the way places. And even in in the way places.

I did essentially a private tour a few years ago. An agent should be able to arrange a trip including whatever level of hotels you want. The places I stayed were certainly a step above what you are looking for but most of them were somewhat basic compared to most other places. They can arrange transport, guides, etc. for you. Keep in mind that the tourist infrastructure isn't so developed there yet.