I've never experienced any problems on any USB ports, mini, micro, full sized, type A, B etc.
I really think that it's not a big concern. Worst case scenario, you just have to resolder a new connector, and you'll be set back a couple bucks. But thinking that's going to happen anytime soon is pretty ridiculous. They say 5,000, but I think that you would be able to get far more, since most manufacturer estimates are pretty conservative, so mini usb may have just had a few rough trials compared to micro.
I think not buying a board because it has a removable cable is kinda ridiculous. Assuming you have two boards, and use the 5,000 cycles expectancy, it would take *27 years to cycle through both of them and break the USB ports (assuming you change the boards daily)
*I didn't account for leap years, 27 years is plenty to get the point across