It doesn't really matter. However, like Toxic said, I'd recommend PS/2 if you do alot of work in Linux or even DOS.
Most people claim that using the USB results in smoother movement. The USB sample rate is hardware locked at 125 samples per second. I have my MX500 on my PS/2 right now with the sample rate turned to 200 SPS using the Logitech software and I can't tell a difference from when I had it on the USB port.