Since the average winning hand is something on the order of 1.5 pair, and the standard deviation breaks at about the set mark, there is not a whole lot of established strategy about how to deal with set miners, or set mining in general. We all will be toast occasionally.
It becomes that gray area where you have to involve your gut feelings (table images, reads, game flow, meta game considerations, even your mood) as much as the odds
at hand. You know sets are always possible, but in reality they just don't show up that often, so the odds become important, but not dictatorial.
One of the few things you can do is to exert pot control via bet sizing. I for one tend to want to take big, top or over pairs farther than I should. Another thing I am beginning to understand is that the stealing aspect is generally more lucrative than the showdown aspect of the game. While both are important, one comes with much less stress. This is forcing me to spend the time to get some reads on my villains.
Granted this is not a foolproof solution, but it can prevent you from losing more than necessary while gaining info. Add in the ability to lay down promising hands, and you have some control over this situation.