Aha, I see - what I say next could be read in an aggressive way, and I can assure you it's not - imagine someone saying it with a smile.
Would it be accurate to say that you're not so much worried about your students paying a fee; but that you're worried that your own sales will go down if students catch wind of the fact they have to pay for both your course and the program it uses?
Personally I'd get in contact with Tom; maybe you could get a bulk discount on licenses, and then include a licence with each sign-up for your course. From there you'd be able to factor in the licence cost into your course cost, and from there you have a USP for your course: C3 is bundled in, and you're getting it at a discount. If you can get a few hundred people signed up it's a win-win.
Hell it'd be a good marketing move from Scirra to bundled a training course with the program itself; really hit the learner demographic hard.