As the title says.

I went into the Gilded Carafe in the CS, moved the merchant chests to the surface and deleted a candle or something to see if the changes get saved.

The CS sees the modifications, as does TES4Edit, but when I go into the game, *nothing* has changed. The chests are well underground and the candle is there and everything is still as it was before.

The .esp file is active, before you ask, and it is the last in the load order.

What gives?

Game version 1.2.0416 and CS 1.2.404

Running on Win7

Update: oookay, this is weirder.

Ran the CS as admin, did my edits, popped up back in game, and --

1) The stuff I deleted in the CS was gone

2) Two of the chests DID pop back up

3) Two of them (high class chests, whatever) were still stuck in the ground even though I did move them.

Did you do a ResetInterior before entering the shop? If you visited the shop already, you'll have to wait for the cell reset to see your changes unless you do a resetinterior in the console. I'm on mobile right now, so I can't provide a link. Do a search for that on the UESP wiki.