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In Voyager an emergency medical protocol hologram becomes the primary medical officer, developing he ability to sing, a personality and even friends.

Does he ever get a name which he stuck with? What was the reason he stuck with that name above any others he was given or took?

AncientSwordRage
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If you insist in a single name, he actually accepted for himself (not a role he played for the sake of beings who wouldn't have grasped "The Doctor"), that would be

Schmullus

It was given to him by Denara Pel, but he later stopped using it (and asked to be called "The Doctor") because the name remembered him of her (which apparently was too painful).

However, you could still argue that Joe is his actual name, but from the past-Endgame perspective he never chose that name in the first place (history rewritten, and so on).

bitmask
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Kinda yes, in the final episode, we see an alternate future where the Voyager crew eventually made it home. In this future, he picked the extremely creative name "Joe".