Some have suggested that Bethesda release a 'best of' pack, but this opens several incredible cans of worm. First they need to review mods, and there are tons of mods out there. Then they'd have to make a selection which would no doubt result in a lot of, "Why did they choose X instead of Y," and "They wouldn't even consider [favorite category of mods]." If all of this wasn't difficult enough now all of the plug ins have to be put in for QA testing, individually and when they're all loaded together. The PS3 DLC (which were five in-house DLC) were delayed months because of QA problems when they were all loaded at once, and as it is many PS3 owners experience problems with the GOTY edition (particularly with long running characters). To then throw on even more mods, and mods particularly any mods that adjust the original game (rather than extra areas, which is what Bethesda generally does), would be horrendous to put through QA - and I'm not sure if it could even make it through QA.
What I gleaned from this is.
Modding the original game's world areas - - those that reside in Fallout3.esm - are apparently, inherantly problem prone and Bethesda itself doesn't prefer to do it that way.
So we as modders may wish to think about this, and if we want to make new places, consider not tearing up the fallout3.esm worldspaces.
One thing I did was I borrowed (stole) a Bethesda test worldspace, I copied it wholesale within the GECK, and I turned off LOD because it was all wrong... and there it was, to edit and fart around with. Maybe that is in fact best practice for certain mods, instead of taking a section of Wasteland worldspace and messing with it.
If Bethesda is fighting to make its own DLCs work together well -- comparing their stuff to ours - - we're certainly in the wild and wooly wilderness with all of the mods we're making and which users are throwing together in gigantic lists of 100+. And we are having people load up old savegames with all of this trying to come together. So.. all of this is good for us to think about.