You might want to also ask this in the COW’s Drone forum. My first impression when reading your question is: “what’s different about a shooter pitching his or her skills for a job, just because the camera flies?”
Now, from reading your post, I can already tell you’re squared-away on the legal aspects of Drone shooting, and that certainly distinguishes you from the grand-variety freelance shooter who doesn’t do that due diligence. That’s part of what daisies the cost: flying safe and legal, and you want to point this out to potential clients, that they are also paying for a guy that will not potentially entangle their name in any legal problems when they need an aerial. “Yeah, that guy’s rate sounds low… but is he legally cleared with the authorities to fly, is he insured?”
That said, I guess you can pitch your jobs by day rate like a regular terrestrial shooter, or you can pitch each job as if it was a stock footage sale. Either way, you’re doing the same thing: you have already calculated your day rate and half-day rate, your travel and insurance/clearance/paperwork costs, and come to a number, below which, it doesn’t pay to take the gig. Stick to that number as your bottom line, and see what they’re offering you. Remember; first one to say a number, loses. If they insist you go first, remember your magic number and start out ten to twenty percent higher than that. Leaves a little room to negotiate down if they balk and you really want the gig, without low-balling you into taking a loss. You might also want to describe your work in terms of levels of service packages, even before you drop that number. “With this package you’ll also get alternate versions of the shot that can be used for bumper shots, still photos for web, brochures, annual reports, etc.”
You should be checking out anybody nearby that offers the same services and ask them for a rate card. Compare your bottom-line rate to theirs. Ideally, you’d want to price yourself half-way between the cheapest local provider and the most high-end guy/gal. If the pricing competition is tight, see what you can offer in other incentives.
But whatever else, never, never fly below minimums on your established rate 😉