It was bought by MS in 2011. It's literally the last couple of years that people are concerned about. It's recent changes that have moved from distributed to central routing.
From the OP article (apparently by Skype [past] principal architect):
>"[...] people who were concerned about privacy -- including many of us in the security industry -- used Skype for secure communications.
>Both eBay and Silverlake maintained this architecture, as well as the Luxembourg HQ.
>Since being acquired by Microsoft, however, the service has been re-architected to run through MSFT-owned servers, rendering encryption functionally meaningless and making it just as easy as POTS to monitor.
>None of this -- neither the $7.5B acquisition itself, nor the decision to move to a datacenter model -- make strategic or business sense for Microsoft as far as I can tell." //