Results/Conclusions In 2006, a year of average precipitation (1127 mm), errors related to scaling and imputation of sap flux had little effect of annual carbon assimilation estimates (1-2%), as conductance was generally above values that would limit assimilation. In contrast, these errors translated into large (~27%) uncertainty in annual carbon assimilation estimates in 2007, a year of pronounced drought (800 mm of precipitation). During periods of high soil moisture, elevated CO2 plots exhibited higher canopy conductance than ambient CO2 plots, proportional to differences in leaf area index. During the drought of late 2007, canopy conductance was similar in the two CO2 treatments, indicating a greater sensitivity to low soil moisture in elevated CO2 plots. This non-random variability related to environmental conditions in both canopy conductance values and their impact on carbon assimilation estimates reveals the need for multiyear sap flux data sets to calibrate models in a changing global climate. Our approach represents a valuable tool for dealing with the variability, gaps and discontinuities within such data sets. *Schäfer, K.V.R., R. Oren, D.S. Ellsworth, C.T. Lai, J.D. Herrick, A.C. Finzi, D.D. Richter and G.G. Katul. 2003. Exposure to an enriched CO2 atmosphere alters carbon assimilation and allocation in a pine forest ecosystem. Global Change Biology. 9:1378–1400.