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All plots are for July 1850 (7 months into run)
Based on reduce the absolute difference in the dynamical core fields, I created the following run (u-bn750).
The biggest mismatch between Snr and Jnr is for fluxes_r_surf_cnv.
Still overwriting the cloud moisture fields
but not overwriting
This is u-bo405.
This greatly improves
This is u-bo420.
However, there are still large discrepancies for SW and LW fluxes between Snr and Jnr.