BS"D
I asked the same question to a local Rabbi not to long ago and he gave me an answer along these lines "To change the numeration of the Miqra at this point in time would be a costly and troublesome thing to do. Costly because every sepharim publisher would have to stop all their printings in every language and re do all there master copies. Troublesome because it would invalidate (academically speaking) literately hundreds of thousands of sepharim that have references, in many cases it would make cross checking nearly impossible (for example in Shamu'el)"
To change the numeration of the Miqra at this point in time would be a costly and troublesome thing to do. Costly because every sepharim publisher would have to stop all their printings in every language and redo all their master copies. Troublesome because it would invalidate (academically speaking) literally hundreds of thousands of sepharim that have references, in many cases it would make cross checking nearly impossible (for example in Shamu'el).
But all that is not to say that it wontwon't happen,: in fact it already has. There is the Shiva Le'Bitzaron which seeks to return to the ancient mesora of the text and not the adopted xtian counting. HereHere is an article and video about it : http://www.israelnationalnews.com/News/News.aspx/149172.
Hope that helps.