In this paper, the authors show how the variability of the water conte
nt in individual clouds, the complexity of individual cloud structure,
and the lateral and vertical heterogeneity of the distribution of ind
ividual clouds can produce systematic effects in the inversion of inte
nsity distributions and the inference of source functions and the vert
ical temperature profile. This is possibly very significant, even in s
imple applications of radiative transfer theory where multiple scatter
ing is not very important, in light of the randomness in the water vap
or content and geometry associated with the microphysics of clouds. A
practical procedure is provided to quantify this effect and to obtain,
in certain circumstances, an improved estimate of the vertical temper
ature profile.