Thanks for answers, here is my general log and tree log file. I may have got it wrong, but I thought that you need to keep all mods you want lod generated for enabled and included in load order, so program may read them and took models from mod to generate lod of them. Maybe there need to be some additional resources, but I thought tool will use native mod models to create their lod.
If I may ask I also have question about grass lod. I have succesfully it generated, but as move through world cells and previously inactive cells with lod being loaded - grass lod rapidly disapears and after some time full models come to its place. I expected that first full models would be loaded before lod being unloaded. Not to mention that full grass models should already be in memory as they are already placed and displayed in active cells, as well as grass placement cache for loaded cell as it is used to place grass lod.