I use 10 gal polyethylene totes (lidded) that I bought at Menards (regional variant of Lowe's, Home Despot, etc.) for bottling. This allows me to easily perform the necessary operation of moving the bottles empty to the basement for filling and back upstairs for conditioning. The fact that they're lidded and stackable means they're easily stored when the beer is conditioning, and when empty. Each tote will hold 32 12 oz. 9 in. longnecks, and fewer (I think 20) pint flip-tops. These have the additional advantage of being easy to bottle, as I can set them on my basement floor, which is often wet during certain times of year. I think this shows how everyone's mileage may vary.
After conditioning, I just store the beer on shelves and in a filing cabinet in the basement in 6-pack carriers, and empties in the garage the same way. In any aspect of my brewing, I always strive for K.I.S.S. as a first principle.
Wish I needed bottles badly enough to drive up to the Map Room to cadge some....I miss that place.