My wife and I had a four-night stay, extended at the front desk to five the night before original check-out. She only received credit for the final night.
I submitted the folio online through the "Missing Stay" page of the Bonv°y app (or website, I forget which) and she was promptly credited with the missing four nights (plus promo nights) and associated points.
Be sure to get a digital copy of your complete and accurate folio e-mailed to you every time you pay the bill, and especially to get a paper copy, in case you have to scan it to submit for nights or points, or both.