I disagree a bit with Jack.
Open the bags and inventory the parts (hardware) to be sure you have them all. THEN, Every part (like a certain size nutplate) goes in its own compartment. You can get great divided compartment containers cheap at Harbor Freight or similar places. You can put more than one type of hardware in the same compartment as long as you cannot mistake them! (Ok to mix one particular size of nutplates and a certain size washer, for example, in the same bin. But never mix more than one size of nutplate, nut, washer, screw, rivet, etc. in the same bin!)
In subsequent kits, you will be getting additional quantities of the same parts (hardware) you got in previous kits. Inventory them, then add them to the appropriate bin with the other parts. You will have a fair amount of leftover rivets and other things. But not generally leftover AN hardware.
The PLANS NEVER REFER TO THE BAGS!!! YOU DO NOT NEED TO KEEP TRACK OF WHAT BAG HAD WHAT PARTS IN IT!!! The plans simply refer to the parts and hardware by its appropriate designation. Once you insure, from the packing list, that all of the hardware you were supposed to get was there, the hardware goes into the bins and you forget about the bags entirely!
Label each bin (compartment) with the official part number. Not the bag number. At least semi-logically arrange the compartment contents.
Bill H.