It is not what you think is fair but it is what is in writing as mandatory requirements unfortunately. If the shop was going to be lenient on a few things then it is their issue if it comes back to anyone so I can see after they got your car in they realized the risk of letting that pass.
Get some Honda Accord headlights, wire up some markers and DRLs and strengthen the front bumper support. It will be worth a day of work to get your car on the road and this behind you than taking your car to a variety of shops and getting charged $100+ each time and still no paperwork is resolved