I saw a video on how to make chapatis and someone made a comment saying you must allow chapatis to fully inflate because it is the steam inside them that cooks them and not fully inflating means you have raw dough evidenced by areas with lighest colour.  This makes me wonder then doesn't microwaving cause chapatis not to fully inflate and so they would end up partly raw as per comments?  Is the only way to fully cook chapatis to put them over fire?  Couldn't you pan heat, grill or bake them etc to have them fully cooked(though I imagine they will not inflate by these methods)?  
Your usual cookie recipe can't simply be adapted, but there are plenty of yeast cookie recipes (chocolate chip example). Some of them look rather interesting, but unlike the one I linked have significant rise times.  