I was once staying seven consecutive nights in a single hotel but couldn't get the middle night on points. I emailed the hotel explaining there would be five rewards nights over six nights of stays, but didn't get anywhere. Eventually the missing night opened so I was able to get the free night.

With that said, it doesn't hurt to reach out to the hotel and ask if they could make an exception given the circumstance. Worst case scenario: They say no and your in the same position you are in now.