A commander's inquiry's normally is used to gather evidence or see what is going on... In my experiences in the military most commander inquires are 15-6 type investigations... If the inquiry is used to take further action you will be able to appeal but Mr Cassara is right. There are not enough details here.
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This appears to be the same question you posted earlier. You should consult an attorney. Most of the attorneys who answer questions on Avvo offer free consultations. Take advantage of this service. Good luck.