...well this is how *I* did it. Your specific site setup may differ depending on your needs.
***site update in progress 7/28/04 keep checking back for new details denoted by the red text***
First, our existing setup.
We have about 100 Macs and 250 PCs in our classrooms & computer labs that students and teachers login to. All PCs are running Windows XP and our PC servers are Windows Server 2003. When users login from a PC, they authenticate against Active Directory and they are presented with their roaming profile - that is also stored on a W2K3 server. All Macs are running MacOS X 10.2.8. When users login from a Mac, they authenticate against an XServe running MacOS X 10.2.8 Server that also stores their home folders and is the MCX parent. All users who login on Macs and PCs have 2 separate places to find their files but neither is accessible from the other platform - which is fine for our purposes. And they have 2 separate logins to remember. We try to start every user off with the same ID & PW for each system and we tell the users that if they change the password, it does not change it on the other system. The PCs are primarily used for typing up Word documents and Excel spreadsheets, surfing the web, and doing PC-specific class work (which is MS Office and web surfing) so their storage requirements aren't very large. PC logins are limited to 30MB. The Macs are used for a larger variety of programs and files (Photoshop, QuarkXPress, Illustrator, MovieWorks, InDesign, Dreamweaver...) so we limit Mac space to 100MB each with the exception of certain students who are taking specific Senior level classes - they get 200MB.
Second, our requirements.
Third, our fallbacks (Plan B).
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