Hi Shawn,
In all sincerity and not to sound trite, but your questions lead to a lot of research. From a market standpoint, analysis fetch good money.
As far as your production, I would guess you have two factors. What production levels are you looking for and are capable of, and two how much does it cost you to provide such.
The per square foot variable, might be something you want to re-evaluate. Although GC's like to deal with this factor, timberframing is driven (in my opinion) by joinery and each's degree of difficulty. I would think that as a company progresses you would have a historical perspective (with accurate record keeping) to be able to say an additional X per square ft depending on what is desired.
Sorry I couldn't be of more help. There are a lot of questions that companies think of each day.
Have you tried to call TFBC.
Best of luck. I like to think courage pays off. California needs you.
Cheers.