windows and OS X are operating systems, not ipod formats. if you're asking which OS is better, well, itunes works on both.
I mean, which would be best to have my ipod work in, right now it's a winpod, would it be better to have it has a macpod?
As a winpod, you can use it on both windows and mac, if it is configured on a mac, it will strictly work on macs.