[Robert A Cook PE]

No, cloud cover is NOT in the CGM programs.

[Gondring]

No, cloud cover is NOT in the CGM programs.

I'm guessing that you're confusing the limitations of coupling with the complete lack of modeling. Of course, cloud cover (and upper-tropospheric humidity) remain some of the more problematic components of climate modeling, but parameterization of cloud cover is definitely in every (major) GCM (perhaps not SimEarth :-).

A very quick search gives some examples of cloud cover in GCMs...

• Norris, J.R., and C.P. Weaver, 2001: Improved Techniques for Evaluating GCM Cloudiness Applied to the NCAR CCM₃. J. Climate, 14, 2540–2550.
• Soden, B.J., and I.M. Held, 2006: An Assessment of Climate Feedbacks in Coupled Ocean–Atmosphere Models. J. Climate, 19, 3354–3360.
• Stubenrauch, C.J., A.D. Del Genio, and W.B. Rossow, 1997: Implementation of Subgrid Cloud Vertical Structure inside a GCM and Its Effect on the Radiation Budget. J. Climate, 10, 273–287.
• Groisman, P.Y., R.S. Bradley, and B. Sun, 2000: The Relationship of Cloud Cover to Near-Surface Temperature and Humidity: Comparison of GCM Simulations with Empirical Data. J. Climate, 13, 1858–1878.

(Haven't read even the abstracts, but just include them as examples.)