We compare two mechanisms that dominate the temperature-dependent changes in electronic structure for poly(3-hexylthiophene-2,5 diyl) (P3HT). Structural changes in the relative orientation and configuration of the aromatic ring backbone are observed to occur over a wide range in temperature and affect the local final state screening in photoemission. There are also changes in conductivity and carrier concentration at lower temperatures leading to altered long-range intramolecular screening of photolioles and final state effects that affect excitation spectroscopies including photoemission. For polyethylenedioxythiophene (PEDOT), temperature-dependent changes in the structure and configuration of the polymer backbone are not as significant, although temperature-dependent final state effects are observed.