Well, your blue prints are to represent your house exactly as it is to appear. Offend times prints are changed in the field and new ones drawn to reflect the changes. I would be concern about the company doing the building especial if they lost them!
It might just be feasible that this set could get lost with these changes on them......I would ask for a complete set of prints with the changes you requested before I would allow work to continue. This will make sure that it is etched in stone, and everyone know it.
Good Luck, Joseph Fusco Fusco & Verga Construction Co., Inc.