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HIPAA is a law that applies only to covered entities. A covered entity under HIPAA is defined as "healthcare providers" and "healthcare insurers." An employer is not a covered entity under HIPAA. An employer is not bound by the rules and laws on personal health information as many people seem to think.
An employer has a right to insure that their employees are safe to perform the duties of their job. As such, it is not a violation of HIPAA for your employer to send you to a doctor to insure you are safe to carry a gun and to perform your duties, in fact it is the employer's obligation to do so, because if you are involved in ANY incident, even one where you are correct in your actions, if the fact you were on some medication that can cause any level of impairment is discovered the department can be liable.
Thus, as a law enforcement/public safety
officer the employer has a duty to you and the public to insure that you are safe to perform and as such asking you to get a doctor to certify that is well within the employer's rights. You DO NOT HAVE to resign, since you do have a qualified disability and are entitled to protection under the Americans with Disabilities Act and as long as a doctor certifies you are safe to perform, the employer cannot fire you over this issue.
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