when you create the array of arrays, if you use the array() function, like so...
$array = array();
$array[0] = array();
$array[0] = $arrayinarray
$array[1] = array();
then when you do a print_r of the array it will still appear to be there but as an empty array,
then what you should do is look through the array
foreach ($array as $key => $a){
if(empty($a)) echo $key . " is empty";
}
I never checked my syntax or anything but that should start you off