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this sounds like it's creating a 'local' install - for a normal agent install the 'NSH/conf' directory should be empty.
when you ran the silent install were the NSHDIR or KEEPLOCAL variables set ?
the other thing you could try is running:
./RSCD82-SP3-AIX32.sh –silent > rscd.out 2>&1
and then we can look at the output and see why it's not working correctly.