Well, if you build the base in a system with major maintenance facilities and you have a dedicated tug class, shouldn't be too much of a problem. In fact, what I'd recommend is holding a base in reserve above your planet, and then when the time comes for overhaul, drag the reserve base over to the point the other one is at, take the one you had stationed back for overhaul, and when it's done, it becomes your reserve station.
This is all hypothetical on my part, as I've never done that before.