I have the same question, a lot of ex-FCP users seem to have to same problem..
It was all so simple. Export using Quicktime, ProRes, that was the master.
Using that to create other smaller versions.
I read a lot that Avid’s DNxHD would be the solution.
But, if I for instance edit 5D’s dslr footage in h.264 (very good of PP that you can edit in native format!), then export master to DNxHD, that masterfile does not playback smooth!
(Above is, editing and exporting on a very powerfull Windows machine, playing the master file in Quicktime)