The Whole Atmosphere Community Climate Model version 6 (WACCM6) is a major update of the whole atmosphere modeling capability in the Community Earth System Model (CESM), featuring enhanced physical, chemical and aerosol parameterizations. This work describes WACCM6 and some of the important features of the model. WACCM6 can reproduce many modes of variability and trends in the middle atmosphere, including the quasi‐biennial oscillation, stratospheric sudden warmings, and the evolution of Southern Hemisphere springtime ozone depletion over the twentieth century. WACCM6 can also reproduce the climate and temperature trends of the 20th century throughout the atmospheric column. The representation of the climate has improved in WACCM6, relative to WACCM4. In addition, there are improvements in high‐latitude climate variability at the surface and sea ice extent in WACCM6 over the lower top version of the model (CAM6) that comes from the extended vertical domain and expanded aerosol chemistry in WACCM6, highlighting the importance of the stratosphere and tropospheric chemistry for high‐latitude climate variability.

The quality of the retrieved temperature‐versus‐pressure (or T(p)) profiles is described for the middle atmosphere for the publicly available Sounding of the Atmosphere using Broadband Emission Radiometry (SABER) Version 1.07 (V1.07) data set. The primary sources of systematic error for the SABER results below about 70 km are (1) errors in the measured radiances, (2) biases in the forward model, and (3) uncertainties in the corrections for ozone and in the determination of the reference pressure for the retrieved profiles. Comparisons with other correlative data sets indicate that SABER T(p) is too high by 1–3 K in the lower stratosphere but then too low by 1 K near the stratopause and by 2 K in the middle mesosphere. There is little difference between the local thermodynamic equilibrium (LTE) algorithm results below about 70 km from V1.07 and V1.06, but there are substantial improvements/differences for the non‐LTE results of V1.07 for the upper mesosphere and lower thermosphere (UMLT) region. In particular, the V1.07 algorithm uses monthly, diurnally averaged CO₂ profiles versus latitude from the Whole Atmosphere Community Climate Model. This change has improved the consistency of the character of the tides in its kinetic temperature (T_k). The T_k profiles agree with UMLT values obtained from ground‐based measurements of column‐averaged OH and O₂ emissions and of the Na lidar returns, at least within their mutual uncertainties. SABER T_k values obtained near the mesopause with its daytime algorithm also agree well with the falling sphere climatology at high northern latitudes in summer. It is concluded that the SABER data set can be the basis for improved, diurnal‐to‐interannual‐scale temperatures for the middle atmosphere and especially for its UMLT region.

A three‐dimensional chemistry‐transport model of the stratosphere is used to simulate the evolution of trace constituents during the 1991–1992 Arctic winter. It is shown that heterogeneous reactions on polar stratospheric clouds led in early January to almost complete activation of atmospheric chlorine inside the polar vortex, in remarkable coincidence with observations by the ER‐2 aircraft (Toohey et al., 1993) and the microwave limb sounder on the Upper Atmosphere Research Satellite (Waters et al., 1993). Sulfate aerosols resulting from the eruption of Mount Pinatubo also produced a significant increase in chlorine monoxide (ClO) concentrations at middle and high latitudes. The net chemical destruction of ozone found in the vortex at the end of the simulation (25% at 50 hPa and 25 DU), although substantial, was limited by available sunlight and the short period during which stratospheric clouds occurred.

The transition between the middle atmosphere and the thermosphere is known as the MLT region (for mesosphere and lower thermosphere). This area has some characteristics that set it apart from other regions of the atmosphere. Most notably, it is the altitude region with the lowest overall temperature and has the unique characteristic that the temperature is much lower in summer than in winter. The summer-to-winter-temperature gradient is the result of adiabatic cooling and warming associated with a vigorous circulation driven primarily by gravity waves. Tides and planetary waves also contribute to the circulation and to the large dynamical variability in the MLT. The past decade has seen much progress in describing and understanding the dynamics of the MLT and the interactions of dynamics with chemistry and radiation. This review describes recent observations and numerical modeling as they relate to understanding the dynamical processes that control the MLT and its variability. Results from the Whole Atmosphere Community Climate Model (WACCM), which is a comprehensive high-top general circulation model with interactive chemistry, are used to illustrate the dynamical processes. Selected observations from the Sounding the Atmosphere with Broadband Emission Radiometry (SABER) instrument are shown for comparison. WACCM simulations of MLT dynamics have some differences with observations. These differences and other questions and discrepancies described in recent papers point to a number of ongoing uncertainties about the MLT dynamical system.

The current standard version of the Whole Atmosphere Community Climate Model (WACCM) simulates Southern Hemisphere winter and spring temperatures that are too cold compared with observations. This “cold-pole bias” leads to unrealistically low ozone column amounts in Antarctic spring. Here, the cold-pole problem is addressed by introducing additional mechanical forcing of the circulation via parameterized gravity waves. Insofar as observational guidance is ambiguous regarding the gravity waves that might be important in the Southern Hemisphere stratosphere, the impact of increasing the forcing by orographic gravity waves was investigated. This reduces the strength of the Antarctic polar vortex in WACCM, bringing it into closer agreement with observations, and accelerates the Brewer–Dobson circulation in the polar stratosphere, which warms the polar cap and improves substantially the simulation of Antarctic temperature. These improvements are achieved without degrading the performance of the model in the Northern Hemisphere stratosphere or in the mesosphere and lower thermosphere of either hemisphere. It is shown, finally, that other approaches that enhance gravity wave forcing can also reduce the cold-pole bias such that careful examination of observational evidence and model performance will be required to establish which gravity wave sources are dominant in the real atmosphere. This is especially important because a “downward control” analysis of these results suggests that the improvement of the cold-pole bias itself is not very sensitive to the details of how gravity wave drag is altered.

The Community Earth System Model (CESM1) CAM4-chem has been used to perform the Chemistry Climate Model Initiative (CCMI) reference and sensitivity simulations. In this model, the Community Atmospheric Model version 4 (CAM4) is fully coupled to tropospheric and stratospheric chemistry. Details and specifics of each configuration, including new developments and improvements are described. CESM1 CAM4-chem is a low-top model that reaches up to approximately 40 km and uses a horizontal resolution of 1.9° latitude and 2.5° longitude. For the specified dynamics experiments, the model is nudged to Modern-Era Retrospective Analysis for Research and Applications (MERRA) reanalysis. We summarize the performance of the three reference simulations suggested by CCMI, with a focus on the last 15 years of the simulation when most observations are available. Comparisons with selected data sets are employed to demonstrate the general performance of the model. We highlight new data sets that are suited for multi-model evaluation studies. Most important improvements of the model are the treatment of stratospheric aerosols and the corresponding adjustments for radiation and optics, the updated chemistry scheme including improved polar chemistry and stratospheric dynamics and improved dry deposition rates. These updates lead to a very good representation of tropospheric ozone within 20 % of values from available observations for most regions. In particular, the trend and magnitude of surface ozone is much improved compared to earlier versions of the model. Furthermore, stratospheric column ozone of the Southern Hemisphere in winter and spring is reasonably well represented. All experiments still underestimate CO most significantly in Northern Hemisphere spring and show a significant underestimation of hydrocarbons based on surface observations.