1. I don't know how you're going to change the most dominant species into the most discriminated species within a week.
2. I don't know how you're going to enforce this sort of behavior in humans, considering they have no whitelists.
3. If Jargon overtakes NT, it would not be Nanotrasen anymore. Jargon has no corporations for a reason - it would become just a Jargon Federation station rather than a Nanotrasen station, which would screw with the setting tremendously. It'd require some remaps and a lot of wiki rewrites, and also rebranding of CCIA and Central Command in general. ERT, too. And the Foreign Legion... And removing the AI from the station... And outlawing IPCs... And a lot, lot, lot of other things...
4. A lot of people don't support racism already. Most people in the racism thread, in fact, voiced their disagreement with the thread's claims and calls to action.
5. It would somewhat screw with players' general expectations when newly coming to the server. On most other servers, humans are the dominant race, and I don't see a particular reason to go against this trope.
6. Actually, I don't know how you're going to enforce this behavior in whitelistees either. Vaurca essentially have a shtick of being discriminated - wouldn't that undermine it? Same with, say, Tajara.
I don't see it as a bad event, and a Skrellian map would be cool, but definitely not something to launch permanently - and especially in the manner you've described.