Ah-ha! This is probably what is causing the lack of upward movement. I think the doc was waiting until the next morning to sign everything.
In that case, just before signing off the chart he can repeat the same process, choosing of course to "preview print" then x-out each pop-up preview. then sign chart and it will count for THAT day (meaning, if you were attesting the dates 1-90, and on day 91 he signed notes of visits on day 90, the MU13 numbers will not count... it goes by the signed date... something to do with that "within 3 days of request" thing I figure).
However, if he signs off without repeating the meaningless stuff, it doesn't count at all.