I think that at night you can perhaps allow for this by adjusting the working timetable to, in effect, give a minute or two margin. Of course, you could only do this at one or two stations (like the starting station, or a major interchange along the way).
Given the example of coming out of a theatre/O2 or whatever, and the rather hit-and-miss state of the tubes at night (often a long gap then many bunched up, complete with trains then held to regulate the service), it may make a difference and not affect the running at all. Yes, you might get some people moaning that the train appears to be delayed, but that can be our little secret!
But, in my case of leaving the O2 and rushing to get to London Bridge to get a FCC train - there are rather too many trains coming and going to hold anything up. Unless it's very late, I'll now stick to the Northern Line and go to King's Cross St Pancras and not even try to rush for a train if there's only a few minutes.