In my game last night (on Mac OSX) I tried building waves of 30-40 booms to send at a player. If you use area attack commands the entire boom blob will all beeline for the exact same structure (usually the nearest single wall block) and then sit there idle after it is destroyed. This seems like incorrect behavior- they should disperse themselves to all available targets within the area and then start doubling up once all targets are covered. More buggy, I couldn't use any form of direct attack with them. Selecting them and giving a command to attack a structure or unit did nothing and they would just sit there idle. The only work around was to direct attack the ground near what I wanted to kill.
I think this is a bug / unexpected behaviour with area attacks in general. Bombers do the same if I am not mistaken. Area attacks really should work like you propose.