Modding Help I removed a mod, then put it back, and now many of my vanilla items are invisible

as you can (or I guess can't) see, there are invisible doors, tables, and bookshelves where there used to be not-invisible doors, tables, and bookshelves. They're still slightly interactable such as tables being able to be jumped on and closed doors can be collided with but containers can't be opened and neither can doors. The items also cant be destroyed. Everything is exactly the way it was before I changed anything, how can I make it recognize these items again? They're all vanilla items too which confuses me the most! If it helps, the mod I removed then put back was http://community.playstarbound.com/index.php?resources/dyeing-bucket-multiplayer-friendly.970/

 

Also, all of these items that I had in chests turned into perfectly generic objects. Does anyone know if perfectly generic objects store some sort of ID as to what item they originally were? Or once they become one are they stuck that way forever? I can stack them on top of each other as if they were one item so that takes away some hope...

 

It's a bug with the game itself and nothing you did wrong. When an object is removed from the game wither from an error in the programming or if it was deleted from assets it seems to leave it's collisions behind. You can USUALLY fix this by placing tiles such as dirt where the objects were and removing the tiles

 

I had the the same problem, removed a mod, put it back, objects were missing and never re-appeared but their collision boxes were still around. I just tried the suggestion in 3 separate places and can verify that putting some dirt down and mining it back up erases the phantom hit boxes.

Doesnt get the items back, but at least it makes that space empty again.