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To run Windows CE 6.0 on hardware (like an x86 PC or HMI device), you generally follow these steps: Windows CE 6.0 | Specs, reviews and EoL info - InvGate
: Many implementations use a FreeDOS or MS-DOS environment to launch the CE loader. You can use tools like windows ce 6.0 bootable iso
For 99% of users, creating a physical bootable ISO is a nightmare of driver conflicts. The superior method is emulation using or VirtualBox (with modifications). To run Windows CE 6