That's never been how it works. There's supposed to be a time limit between refills to discourage people from using the mugs to fill a larger container, but I think it's only 2 minutes. If you get a paper cup, I think you can only fill it up 4 times in an hour (because it's only intended to be used for one meal), but the mugs have unlimited refills for the length of time they're purchased for (I believe it's 1 day, 2 days, 3 days, or length of stay.) And I've never heard anything about resorts disabling the chips due to complaints.
Okay Great. I have read on the Dis about resorts disabling the chips and the cups having a maximum # of refills per day. So, I am glad to know that it is not the case. Thanks for setting the record straight.