I'm kind of left without words here.
 If you are out replacing trusses because your first set looks terrible with metal on it, it stands to reason that the next set has to be laser straight, as everybody knows the customer is going to be looking at it like a hawk. I try to not be overly judgmental of situations I'm not personally familiar with, but something like this makes me believe that things are not working in the supervisory structure of this company.
 The "it will settle out" line is concerning as well. The reason we buy trusses is so they don't settle.
 As has been mentioned, with the way they build trusses these days, someone almost had to mess with an alignment pin. This makes me believe they have a flaw in the engineering, and didn't change it from the first set to the second. This can be what happens when you have a company that is overly reliant on processes over common sense.
 At this point I'm not confident that this company will be able to adequately resolve this issue.
 Just one internet guy's opinion.
		
		
	 
I hear you. This is a huge company that produces beautiful buildings, but this branch is obviously struggling. 
We WERE thinking that given the poor look of the roof and the delay to get there and the general hassle that we would accept some sort of price reduction. 
HOWEVER...
On friday when the sales guy said he was going to bill us full price even though we were unhappy, I was pissed and went out to measure the trusses. I found that some of the truss the lumber is moldy, water stained, had been water saturated after kiln drying, has some rot evident (I do have the training to say this), and there are truss plates not fully seated again (gapping over spec). 
(I get it that some may again say it is on me to not reject moldy trusses, but I can't evaluate every piece of material that they bring on site, especially if I'm trying to live my life and elk hunt a lousy elk tag most of that week. Also the top truss that I looked at was the best for mold and staining (shocker).)
So what do you do now? My issue made it very high in the corporate structure last time. Moldy, water stained trusses with some rot with sloppy plates make the building immediately less valuable even if it is warrantied (if I die, my wife will probably want to sell the property and move to town, for example). 
I have not heard from the person who would make the decision how to proceed at the company, he is the one that worked out the plan how to fix the last time and seemed reasonable. 
Lawyer up is always thrown around... this is a big company to fight and I'm reluctant (but I do have a candidate that specializes in construction litigation identified).  What would one settle for given the situation as far as money, how would that even be calculated? Really, looking for thoughts. We are both tired of it and there is a consideration of how much of a toll something should take.