Hey ML,
Well essentially you should download the Windows 64 bit Qube! and the 64 bit support for 3dsmax 9.0 before we begin. Just made available a few minutes ago.
Assuming you are using 64 bit versions of everything... (including your plugins) then Qube! will manage the 64 bit stuff correctly on 64 bit machines. If you are using the 32 bit version of 3dsmax 9.0, then you may still install the 64 bit version, however you will need to install the 32 bit version of the 3dsmax 9.0 support for Qube!. Just remember that any workers you plan on setting up, require that you install all relevant software including Plugins.
Licensing as well must also be taken care of by you in case you have any plugins which have rendering licenses since most of the time commercial plugins charge for it.
Thanks,
Anthony