SWEET! I don't even need to round anything. I changed the date_format from %T to %H:%i and now it calculates the minutes.
If anybody needs to subtract time from 2 colums in a row in MySQL I believe this will work for you as well... of course you'll have to do a little customizing to match your table, rows, etc...
$sql = "SELECT DATE_FORMAT(timein, '%m-%d-%Y %H:%i'), DATE_FORMAT(timeout, '%m-%d-%Y %h:%i'),clockStatus, TIME_TO_SEC( DATE_FORMAT( timeout, '%H:%i' ) ) - TIME_TO_SEC( DATE_FORMAT( timein, '%H:%i' ) ) AS timediff FROM timeClockPunches WHERE username = '$userName'";
Thanks for the help guys.