Hm, you've put a lot of thought into this. This line should be said somewhere in the show imo. Personally, my conclusion would've simply resulted in assuming the deep bass voice being manly and the captains general awesomeness amplifying it.
The probably most witty and funniest way to present this would probably be pilot trying to explain the captains awesomeness and a tired snippy answering something along the lines of.. "So.. an electronic amplifier then?" and then some random action where pilot tries to dismiss it resulting in a frustrated snippy tries to strangle him when the captain barges into said room and wants to assign another silly mission.
You should write a fan story for the group, I've been trying to motivate alexiuss to start a writing contest for the group, but after saying it two times to no avail, I assume he's just not that interested in it at the moment.
But hey, if you want to, I think you'll do great. You appear to have an analytical and creative mind. That plus imagination and vocabulary is all you need to write something, I think? XD
Part of the power of this comic is the strong relationship it has with social media. Some ideas appear to develop through fan interaction on DeviantArt, Facebook, Twitter, and the comic's Comments. It wouldn't surprise me if Captain was originally intended to be male, but the strong positive response to a main character undefined by gender encouraged Alexius to continue in that direction. And since videos had already been made, the explanation for a masculine voice would have to be a voice changer. I like your idea for the presentation of it, and feel it can still be done! Alexius keeps up with his fans' suggestions even if he doesn't always (rarely) replies.
Perhaps try writing him an email about the writing contest idea? It's a good one!
Well, he did respond to my comment, so I assumed he read it the first time. I got the idea while approving submissions into the group. Noticing there had been multiple apocalyptic writings that had been approved lately, I stacked them all in a new category. Some guy had for example submitted a story split into seven parts, each being pretty damn long and it's not even done yet.
I'm not sure if writing an email will help much. Instead, spread the word and start an unofficial contest between a group of friends/fans? Although I don't really think I have the time to be a judge. Got a project I need to finish before Friday.
I may look into the stories after that though, possibly and then link those I find best to alexiuss, or something. Hell, if that doesn't work, I'll award the winner with a few points and a llama. XD