Finally, Leland Chee has posted on the Star Wars Blog about the
chronology of The Clone Wars after all the time-hopping stories
in the first three seasons. It looks like the syndicated
episodes will actually be airing in chronological order as
opposed to their original air order, and he'll be updating as
the episodes air, and covers four episodes and the movie in this
post. It was clear that "Cat and Mouse" and "The Hidden Enemy"
would go before the theatrical film, but I'm glad to finally get
the other, harder-to-place episodes in order. The only time-
jumping episode from Season Four seemed to be "Shadow Warrior,"
which aired after the Mon Calamari arc but took place prior to
it, so I'm assuming that most of the other episodes after the
main characters got their redesign halfway through Season Three
should already be in order.  As to how it relates to the
existing EU, he says this: He doesn't get into it any more than
that, but it's good to know that they're at least dealing with
this.