Keep your eyes open and take everything you see in the 'mainstream press' with a grain of salt. Jim Finkle, we now have our eyes on you. Unnecessary drama [PDF warning] arouses suspicion about ulterior motives.
Update: Here is another confirmation (this time from RMS), in case one was needed to show that Reuters was wrong. The previous confirmation came from Peter Brown of the FSF.
One common concern when things go "live" is that any random bot out there can execute queries, pumping up RAM and CPU usage, as happened when we used MediaWiki and WordPress
In short, it's not too clear what Microsoft has just done except dumping GitHub - i.e. mostly a Web site that loses a ton of money (it always lost money) - into some mysterious new bucket