OP, I agree, the lettering looked great on the concept car but out here in California the brand Scion doesn't carry any cache with it. It's a bummer but most self respecting (consider the company parking lot is filled with Acura's, Lexus's and Audi's.. not Scions, GTI's or Civic SI's) employee's won't want to draw any extra attention to their vehicle being a Scion and the badge is more obscure then spelling it out.
I'd personally consider a de-badge.
It sucks but that's the way it is