TR_Mainland.esm    ex_velothi_loaddoor_01    Almas Thirr, Plaza    3906    5101    11451    "check door mesh position"

TR_Mainland.esm    T_De_SetVeloth_X_LighthouseT_01    Almas Thirr (6,-28)    56600    -222453    1477    "fixposition"

note: there are more T_De_SetVeloth_X_LighthouseT_01 static positions wrong, use the right clik/info in the construction set and check all the references

[EDIT] more position problems

TR_Preview.esp    ex_velothi_loaddoor_01    Othrensis (16,-29)    134287    -231120    1103
TR_Mainland.esm    T_De_SetVeloth_X_LighthouseT_01    Aimrah (12,-34)    104849    -276625    1874

[EDIT2] I found the real problem, it is not a TR one. At least x\ex_vivec_h_09.nif from Glow in the dark\Atlas project mesh is out of center, making references used near it apparently out of place. I will report to Glow in the dark\Atlas project developers. Correct mesh is present in latest release, I was using a previous version.

You can mark this as solved/not a problem