Here are some of the answers I have received in response to questions I posted to the Crossfire discussion group on Yahoo groups.
Thanks to all those who have replied to my questions!
RetreatsCan you retreat move a commander? Yes
HMG movesAre there any restrictions on HMGs moving and then firing in the same initiative? No
RallyingCan a suppressed commander set up crossfires or rally troops? No, but a pinned one can.
SmokeCan smoke be dropped onto your own troops? Various opinions, ranging from "yes" to "no, definitely not, as HE was used for ranging fire prior to smoke".