Todd did not state that he prefers consoles of any kind. In fact, BGS has always been a PC-centric company and they started on PC, specifically Windows. They have a long-established relationship with Microsoft because of this history and that is precisely what Todd stated (i.e., that they negotiated for the Xbox One with Microsoft first because of their long-standing relationship with them). This is also why Morrowind was ported to the Xbox.
Originally, Bethesda did not have an arrangement with Sony for the Playstation 3 and that is why Oblivion did not come out on that console until long after its original release on the Xbox 360. Well, that is one big reason, anyway, the other being that Oblivion was originally planned to be (and funded to be) a launch title for the Xbox 360.
Simple answer: Bethesda and Microsoft have a very long-standing, well-established and amicable business relationship because Bethesda was always a PC- and Windows-centric company. Naturally, it is easier to discuss a new service offering if the parties involved already know each other quite well, so that is why they talked to Microsoft and convinced them to do it before Sony.
However, do not forget that Todd has been trying to convince both Microsoft and Sony to allow mods on consoles ever since Morrowind. He has been very persistent with them for over a decade because he truly believed that it was feasible and that it would be better for them than not allowing mods. His main concern was that he never wanted console players to feel excluded in some way. Bethesda values their customer base and wants everyone to feel included as one big group. so to speak.