I've not used System Commander. If you can access the DOS partition when booting from a floppy disk, not using System Cammander, you might try that method.

Looking at your AUTOEXEC.BAT, I see C:\WINDOWS\WIN /3 before C:\WINDOWS\net start. The NET must be started before Windows is started. Without this, you may get a delay of up to a minute which may appear as a freeze. This will normally be followed by a message warning that the NETWORK hasnot started.

You should REM out those 2 lines and boot to DOS. Then type NET and see if you can log on at DOS. Windows won't like that if you start Windows after logging on to the network. But you may determine where your problem is starting.

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Dennis
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