Iām no lawyer, but...
The 10 sq ft per bird appears to apply only to chickens. The limitations on population appears to apply to your breeding stock only since their offspring (or introduced offspringābut I wouldnāt mention my auction habit if it were me!) will be sold or harvested at or around 8 wks of age.
I interpret the waste disposal bit to apply to all appropriate storage/disposal methods that donāt result in objectionable odors. That would definitely apply to well-maintained compost bins and/or deep litter. In fact Iām not sure anything else would even suffice. Just throw a nice-looking canvas tarp over the top of the bin(s) if anyone comes to call. You need tarps for rain anyway. Make sure thereās not a lot of nasty wasted food lying aboutārodents and all... Iām not saying youāre not already doing that... pretty sure you are.
Iām really surprised they donāt explicitly exclude roosters. The only potential problem Iām seeing here is if they interpret the run to be a structure, and it buts up against your fenceāor if you have other āstructuresā within the 10ā setback. You could argue that as they have no foundations, theyāre just semi-mobile pieces of furniture that might be anywhere in the yard & that your wooden fence (you have one if Iām remembering correctly?) serves the same purpose (of not violating your neighborās unimpeded use of their property) as the 10 ft setbacks are intended to serve.
Be kind & diplomatic if you end up having to talk with anyone, but Iād avoid being too deferential. Otherwise it seems that bureaucratic types tend to serve the most insistent at the expense of the common good.
This doesnāt look as bad as I expected. Iām thinking itās not actually going to be a big problem for you. Hope not!