© Author(s) 2016. CC Attribution 3.0 License. In situ flight data from two distinct campaigns during winter and summer seasons in the San Joaquin Valley (SJV) of California are used to calculate boundary-layer entrainment rates, ozone photochemical production rates, and regional methane emissions. Flights near Fresno, California, in January and February 2013 were conducted in concert with the NASA DISCOVER-AQ project. The second campaign (ArvinO3), consisting of 11 days of flights spanning June through September 2013 and 2014, focused on the southern end of the SJV between Bakersfield and the small town of Arvin, California - a region notorious for frequent violations of ozone air quality standards. Entrainment velocities, the parameterized rates at which free tropospheric air is incorporated into the atmospheric boundary layer (ABL), are estimated from a detailed budget of the inversion base height. During the winter campaign near Fresno, we find an average midday entrainment velocity of 1.5g cmg sg'1, and a maximum of 2.4g cmg sg'1. The entrainment velocities derived during the summer months near Bakersfield averaged 3g cmg sg'1 (ranging from 0.9 to 6.5g cmg sg'1), consistent with stronger surface heating in the summer months. Using published data on boundary-layer heights we find that entrainment rates across the Central Valley of California have a bimodal annual distribution peaking in spring and fall when the lower tropospheric stability (LTS) is changing most rapidly.Applying the entrainment velocities to a simple mixed-layer model of three other scalars (O3, CH4, and H2O), we solve for ozone photochemical production rates and find wintertime ozone production (2.8g ±g 0.7g ppbg hg'1) to be about one-third as large as in the summer months (8.2g ±g 3.1g ppbg hg'1). Moreover, the summertime ozone production rates observed above Bakersfield-Arvin exhibit an inverse relationship to a proxy for the volatile organic compound (VOC)g :g NOx ratio (aircraft [CH4] divided by surface [NO2]), consistent with a NOx-limited photochemical environment. A similar budget closure approach is used to derive the regional emissions of methane, yielding 100 (±100)g Ggg yrg'1 for the winter near Fresno and 170 (±125)g Ggg yrg'1 in the summer around Bakersfield. These estimates are 3.6 and 2.4 times larger, respectively, than current state inventories suggest. Finally, by performing a boundary-layer budget for water vapor, surface evapotranspiration rates appear to be consistently g1/4 g 55g % of the reference values reported by the California Irrigation Management Information System (CIMIS) for nearby weather stations.