Since the AC3 and AC3Pro have built in webservers they don't care what type of computer you access them with. It is quite unlikely that AquaNotes will be ported to the Mac; the installed base is just way too small.
I don't think that Windows is going to be unix based anytime soon. I do think that Apple is moving towards a Windows compatible operating system though. The first step is Apple has already been done with the introduction of x86 Macs. They took the next baby step with dual boot Windows/OSX software. In a year or two I suspect that there will be a windows compatibility layer for OSX that allows Windows apps to run on x86 based Macs.