Assuming you are putting the furnace in the utility room at one end of the house, I would run a single trunk down the center of the house and branch off the trunk to the various supply points. The returns on the floor are far from ideal but sounds like you are stuck with it.
You'll have to size the trunk correctly. It HAS to drop in size as you get farther from the unit.
I'd probably put two in the upper left bedroom, one in each of the two lower bedrooms, two in the living room, two in the dining room, one in the kitchen under the sink, one in each bathroom, and one in the utility room. Then put 4 in the big room in the basement, one in the utility room, one in the basement bathroom, two in the upper right room. You'll want to send more heat to the basement in the winter and less AC in the summer.
There is a site online that you provide them the info on your house and they will do a Manual J and a duct design for you. It wasn't too pricey and would be totally worth the money spent....even being on a tight budget.
https://www.webrepshvac.com/category.jhtm?cid=2990