In addition to what Dave has mentioned try using 5DtoRGB (there is a free version to try) to transcode your rushes to ProRes for editing – you can set a common FPS and it will conform everything for you so that you don’t have to deal with cinema tools.
In a situation like this we would normally (depending on how much slow mo is shot) shoot everything mixed (1080 @ 25, or 720 @ 50) transcode to prores 422 (hq) with a 25fps edit timebase and then cut in a 1080 sequence just upscaling the few 720 shots, or if there is a LOT of 720 then edit in a 720 sequence.
Your call on whether you transcode the 1080 stuff to 720 in this instance or just render on the timeline.