Turf wars
I didn't look up the time of the interviews, but some of them implied that Bremer had just taken up his position over there, which puts it back a ways.
When you think about it, there are a lot of our current problems that are a result of "turf wars." The intelligence leaks are one. Homeland Security and FEMA were another.
Some parts of the State Department have always resented the influence of those temporary stewards in the White House, never mind the Pentagon. Predates Bush by quite a ways.