AFAIK all airlines only give you the added miles and other benefits of (higher) status after their IT systems recognize that the (higher) status has been achieved. I'm not aware of any that either actually do or promise in their T&C that they will go back and recalculate mileage earnings based on what it ideally should have been, although they are careful about crediting miles correctly at the end of the program year. The same seems to be true for hotel chains.

There might be an argument if egregious errors by the airline operating your FF program caused very long delays despite your good faith effort to fix the problems, but it would need to be an extreme example for any hope. YMMV.