Yes. The installation CDs I've seen have always had CDs for the Wintel Deployment Server and hardware/OS specific CDs for the enterprise server, which can be on a variety of Hardware/OSs.
The client has to specify this when they order the CDs. And they have to be careful that the JDE sales guys understand what the client wants-- one client here received AS/400 enterprise server CDs after mentioning that they *had* and AS/400 running WorldSoftware, though they wanted to install the Enterprise Server on Windows 2000.