So my question is this: Is there a basic order of completing tasks that will make them work. For instance, I went to a lot of trouble to have the Great Khans amenable to fighting against the Legion, but in the For the Republic 2 quest even killing Papa Khan does not make Regis agree to support the legion like he should. I would have liked to have reported to Colonel Cassandra Moore that the task is finished and have her send me on my next mission.
I imagine at some distant point the Fallout Wiki will list this information if it is known, but I am hoping someone can tell me now if there is a working order or if these problems simply have to wait till there is a future patch.