This can be easily seen by using the "Edit Terrain Object" module in 3DEN :
Affected panelaks :
["panelak2.p3d","ca\buildings\panelak2.p3d",false]
["panelak3.p3d","ca\buildings\panelak3.p3d",false]
Respective ruin models :
["panelak2_ruins.p3d","ca\buildings\ruins\panelak2_ruins.p3d",false]
["panelak3_ruins.p3d","ca\buildings\ruins\panelak3_ruins.p3d",false]
Looked at the ruined models listed, and can't actually see why this is happening. All geometry in all LODs sit as they should do relative to the ground plane. From a model perspective i don't think this should be happening.
You should move all lods up as it shown in arma2 samples panelak3.p3d
cup version:
i tryed sample model w/o changes and it looks fine
and seems you'll need object placing correction after model edition ((
Fix that old weird bug pls ^_^