The ships look cool and all, but don't really serve any purpose beyond that. Is there any chance we'll ever get to actually control our ships? Even just a mechanic for manually flying between destinations could be cool, but I would especially love to experience some aerial/space battles or dogfights. I know it would take a whole lot of work/time, but is there a chance it will happen?
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Maybe in D3. But probably no. Bungie don't care.