AF is slower when the ERF is active and zoomed in in the OVF, when the ERF is disabled or zoomed out completely AF speed is similar to the speed with the EVF. AFAIK that was already the case before firmware 2.00
Apparently this is a frequently-asked question: http://digital-cameras.support.fujifilm.com/app/answers/detail/a_id/19546/~/af-speed-of-x-pro2-looks-slower-while-using-electronic-rangefinder-(erf).