Object disappearing in game but not CK

[Rcmo]

So im trying to clean some trashpiles and leaves in the Red Rocket settlement using CK. However instead of deleting those trashpiles/leaves im instead hiding them under the map. Im a bit scared to deleted the, so i dont break the game.  However when i enable plugin and load the game, objects like tires, cabinets and so on that stood on those trashpiles start disappearing after some time. 

Why is this happening, and is there a better method of doing this without breaking the game? 

[Qrsr]

These obejcts may reappear because of scripts, or else. Override them with a 0 bound replacer object of the same type. create a static object without any model and replace the object of choice. this will force the game to 95% of the time to not show the old object.

if the old object appears still you must track down the calling reference which might be a script. if so, you may want to override the reference in that script.

check your changes using FO4Edit and search for [Placed Object] tag, these object overrides must be deleted. since they tend to break the game (PreVis, precombines).

[PJMail]

That is a very odd effect. So I assume the trashpiles you moved were precombined (had [] around them if you looked in FO4edit) so you broke the precombines (otherwise they would still be there). This will only work while your patch is at the end of your load order - so a very short term hack... You need to fix that properly in the long term, however that is not the cause of the 'scrapable' objects above them disappearing... 

My first thought is Bethesda used scrap piles to hide holes in the landscape - so it is possible the mesh is bad under them so objects think they are no longer 'on ground' and sink. I have only seen this happen to NPCs so just guessing here...