Madison Wisconsin pre-sorts mail in ballots by voting ward and has them taken to the polling places on Election Day morning and feeds them through the tabulator after someone cosplays as the voter to ensure the voter can't cast two ballots. I assume the same process is done for all the major metro areas. They'll be counted on time.
(They verify a few absentee ballot envelopes for required signatures etc and then open up the envelopes, someone verifies the ballot is complete, and then mix the ballots together so the ballot is kept anonymous. Chain of custody here is clever and works well. It would still be possible to notify the voter their ballot was rejected.)