Here is what I'm doing:
1) Opening GECK, setting one .esp to active.
2) Editing the DT and AR values of a few armors (power armor).
3) Editing the effects of a couple armors to increase strength to a higher level.
4) Saving the file.
When I load the game, my changes have been saved and are used by the game but all of the scripts attached to the items by the original mod no longer work. When I load up the .esp in the GECK, I find that all the scripts (AdvReconHelmet) are no longer attached to any of the items...and all the armor that the mod added has been deleted/lost.
Is there a better way to edit the .esps? I just want to use a nightvision mod and edit the DT values...but this has been a lot harder than I anticipated.