https://www.navy.mil/Press-Office/Press-Releases/display-pressreleases/Article/2810224/navy-sets-timeline-and-discharge-details-for-those-refusing-the-covid-19-vaccine/
For Navy service members refusing the vaccine, the CCDA also retains the authority for administrative processes regarding removal of warfare qualifications, additional qualification designations (AQD), Navy Enlisted Classifications (NEC), or sub-specialties, except in cases where removal authority is otherwise authorized by law or Executive Order. The CCDA may also seek recoupment of applicable bonuses, special and incentive pays, and the cost of training and education for service members refusing the vaccine.
Those separated only for vaccine refusal will receive no lower than a general discharge under honorable conditions. This type of discharge could result in the loss of some veterans’ benefits.