Rhys, that run-out bug has already been fixed (in the FoW). In fact, if you view the saved scorecard (not the one from the live match output), then the FoW will be correct.
As for the low bowled out score, I'm working feverishly to adjust the probabilities! Obviously a lot of my testing was done without the special skills so now that everyone has 2, it's affecting the probabilities quite a bit. As you go through the tour, when you see some crazy performances (like the 39 ball 78 or the 5 wicket haul), let me know what the players' special skills were so that I can tweak those probabilities appropriately.