What I normally do for this project is get the layout of the building and get how the layout of the equipment will be installed. Then I try to picture out the zoning or area segregation based on the risk of my product. Then from there I will start to have the proper "barriers" in place.
Before construction, conduct soil injection for termite and ant treatment :)
From the segregation, install the necessary hygienic drain. There are hygienic drains intended for both wet and dry process.
Use the proper air handling. Make sure the intake air is not facing your waste water or material recovery facility. also use the proper duct sox that is washable.
Use cards whenever applicable, in other, use biometrics (since production will not be allowed to carry cards).
Follow the proper spacing for equipment and any other installation (the recommended height of the floor, recommended distance between equipment and recommended distance from the wall) Always follow the saying:
"what you cannot see - you cannot inspect, you cannot maintain, you cannot clean". So always have these "spaces" available for you.
A wet cleaning room. If there are equipment you will clean wet from dry process areas.
Install lighting slanted to avoid dirt accumulation.
Minimize also I beam or H beam in horizontal installation to minimize dust accumulation.
Use LED lights whenever available.
For electrical cable, use the open type installation with the cables properly laid out.
Use automatic dispensers as much as possible.
In hand washing, if you can have interlocks that would facilitate following your minimum time for handwashing.
Proper size changing rooms depending on your process.
Barcode scanner system.
There is many more but should be logical to the process :)
Goodluck with that journey :)