Sometimes resources just flip to zero some time after you leave a settlement, whether that be water, beds or food. If you return by fast travel or just running back they move back to the intended amount. I have the same issue but Preston's not bugged in my game, in your case the NPC packages are not properly updated, by the way. Normal console commands are not going to fix the issue, perhaps setting a certain quest stage within ''When Freedom Calls'' could but I know far too little about the present stages to help you with that (we have no GECK yet after all, can't exactly look what stage in the quest is supposed to update the NPC packages). Regarding the bedding situation, placing beds in one of your custom made homes (i.e. not in the remade shambled homes) does appear to solve the issue, atleast for me. No fixes for food or water, we'll have to wait for Bethesda with that one.