The price you were charged may or may not be unreasonable.

Those sellers are often unreasonable and take up a huge amount of your time.

No, it's not unreasonable to ask for it and physical measurements are not required by a GC with experience.Look for another GC.

I know nothing about your market, but using the numbers in your example above, it would not be unreasonable for you to sell the house quickly @ $300,000.

So after asking for a step by step breakdown on how this adds up the selling agent ended up agreeing with me that this is unreasonable.

It isn't unreasonable to ask if you expect he will be spending considerable time there.. 

Not completely unreasonable, being small, but being that everything is new, and I am familiar with prices in this area, I would expect 50-60k for that upgrading.

I am not advocating paying usurious rates or unreasonable fees, but if you do your homework, like you have, you'll find a lender that you're comfortable with. 

A few hours work could save you a whole lot down the road when you find out that you promised to never sue even if everything goes wrong, or you promised  some unreasonable amount of liquidated damages, or you promised that you would take responsibility if the place burned down before the sale was finalized, or a whole lot of other things that are comfortably tucked into that contract.Remember, there is no such thing as standard or boilerplate language in a real estate contract.

I agree with the sentiment on this thread in response to your post.You can't be afraid to move or you will never move, the time will NEVER be right for the cynic or unreasonably cautious.