i would just make it look as stock as possible, go back and ask them to explain what it all mean and what you have to do, Nicely!!!
thay might scrap some and hit you for more easily fixed ones.
once they defected me for no air pump, extactors, non compiant mags, brakes and too low!
went back diddnt change a thing and he let me off for all of them!, mind you it took me 4 times to get threw with my exhaust, in the end they diddnt charge me till i passed... [he told me to pack steel wool in the mufler] i got a young dude, was telling me what to do to get a 13bt thew aswell.