Fallout 3 containers didn't respawn so I was banking on them not doing so in this game.
IIRC, a container that respawns is not one you can put things into to begin with. Also, the Vendor containers which may or may not be used for Shop Inventory in this game is usually hidden in the cell so you can't get to it.
The only containers I would avoid are the ones owned by someone else. What can happen is ownership can get transfered so you get nailed for stealing your own stuff.