In beta 2.5, I played back a saved replay 3 times. The 2nd time, a desync happened where I actually ended up losing my cap ship to a starbase, which did not happen the other 2 times I played back the same replay. I'm not sure if this is related to those desyncs already fixed as described in the dev journal, but if it sounds like a copy of the replay could help, I can try to go find and send it.