It sounds as though the items are not being conformed properly in Poser, as per what jc said above.   Figures imported to Carrara should not poke through their clothes, if they don't poke through in Poser.   One thing I have found with Transposer, though, is that a scene may be imported incomplete.   I think it is a memory issue.   Then, if you make an update in Poser and try to update the scene in Carrara, Carrara gives an error and may actually delete a figure from the existing scene.   Transposer imports what is visible in the scene, so, if an item of clothing, for instance, has been hidden in Poser, it won't be included in the import.