I've duplicated the "runaway" scenario every time I wanted to and found out my main cause... I had shift+q and shift+e bound to strafe left and strafe right on my clones, and the shift seems to "sticky" the clones sometimes. That is, if I use a movement ability that involves shift+something, it will sometimes get stuck down on my clones - when this happens it is VERY hard to fix - I have to flip to my clone window and mash random movement buttons until eventually its OK. I had to turn off shift+whatever strafing for them completely because 1 out of every 2 times I used it they'd just keep running and never stop.

This caused all sorts of weird issues. As soon as I bound the strafe keys, if I ever even bumped shift+q/e say while flying or whatnot it would cause them to do all sorts of weird stuff.

Now unless keyclone can fix this bug (yes, it is a bug because it ONLY happens if I'm using a shift+whatever key to do the strafing) I have to use a regular key to strafe. Haven't decided which ones yet, might go with x and c (has to be my left hand, no modifiers).