The CK does not generate an LOD tree atlas (dds texture file--at least it didn't for me) so I copied the tamrieltreelod.dds file, renamed it, and put it in my textures/terrain/worldspace/trees/ folder and it worked perfectly. The only problem is, http://www.truancyfactory.com/images/misc/treeLod.jpg when you get close to them so they're worse than useless until someone figures out how to fix them.
Most of the LOD.dds textures are heavily reused: one texture may be used for several different LOD objects. That's why you have more objects than textures.
@ElijahHouck: What did you do to get your LOD objects to generate correctly? When I generated mine, I had http://www.truancyfactory.com/images/misc/objectLODbug.png: all mine look like they've been mapped with overhead projection.
Ah, thank you for that. Though, curiously my trees now appear perfectly fine.

As you can see, they fade out when near, and don't 'line up' like they do for Elijah: http://cloud.steampowered.com/ugc/468610754566763517/427D24EB7DBFC519B587C50628FFA4935C2A67DD/ All I did was go to LOD, check tree's and say Generate, then copy and rename the file you said.
On to object LOD for me. I got all the TGA's, but when I try to generate, I get this error:
Texture atlas build failed with the following errors:[LOD diffuse texture '..\Source\TGATextures\lod\MtnRidge02LOD.tga' and normal texture '..\Source\TGATextures\lod\MtnRidge02LOD_n.tga' are not the same size (but should be).
Then it fails and nothing happens. :/ All I did was extract, convert and move the files so they shouldnt get any weird errors like this...