diff --git a/scripts/exregional_nonvarcldanl.sh b/scripts/exregional_nonvarcldanl.sh
index aa653627b..70d043e66 100755
--- a/scripts/exregional_nonvarcldanl.sh
+++ b/scripts/exregional_nonvarcldanl.sh
@@ -165,6 +165,12 @@ else
     bkpath=${cycle_dir}${slash_ensmem_subdir}/fcst_fv3lam${cycle_tag}/INPUT
 fi
 
+if [ ${l_cld_uncertainty} == ".true." ]; then
+  # Copy analysis fields into uncertainties - data will be overwritten
+  echo "EXREGIONAL_NONVARCLDANL.SH: copy tracer file into uncertainty file "
+  cp_vrfy ${bkpath}/fv_tracer.res.tile1.nc  ${bkpath}/fv_tracer.unc.tile1.nc
+fi
+
 n_iolayouty=$(($IO_LAYOUT_Y-1))
 list_iolayout=$(seq 0 $n_iolayouty)
 
@@ -175,6 +181,7 @@ if [ -r "${bkpath}/coupler.res" ]; then # Use background from warm restart
   if [ "${IO_LAYOUT_Y}" == "1" ]; then
     ln_vrfy -s ${bkpath}/fv_core.res.tile1.nc         fv3_dynvars
     ln_vrfy -s ${bkpath}/fv_tracer.res.tile1.nc       fv3_tracer
+    ln_vrfy -s ${bkpath}/fv_tracer.unc.tile1.nc       fv3_tracer_unc
     ln_vrfy -s ${bkpath}/sfc_data.nc                  fv3_sfcdata
     ln_vrfy -s ${bkpath}/phy_data.nc                  fv3_phydata
   else
@@ -183,6 +190,7 @@ if [ -r "${bkpath}/coupler.res" ]; then # Use background from warm restart
       iii=$(printf %4.4i $ii)
       ln_vrfy -s ${bkpath}/fv_core.res.tile1.nc.${iii}         fv3_dynvars.${iii}
       ln_vrfy -s ${bkpath}/fv_tracer.res.tile1.nc.${iii}       fv3_tracer.${iii}
+      ln_vrfy -s ${bkpath}/fv_tracer.unc.tile1.nc.${iii}       fv3_tracer_unc.${iii}
       ln_vrfy -s ${bkpath}/sfc_data.nc.${iii}                  fv3_sfcdata.${iii}
       ln_vrfy -s ${bkpath}/phy_data.nc.${iii}                  fv3_phydata.${iii}
       ln_vrfy -s ${gridspec_dir}/fv3_grid_spec.${iii}          fv3_grid_spec.${iii}
@@ -312,6 +320,7 @@ cat << EOF > gsiparm.anl
    i_T_Q_adjust=${i_T_Q_adjust},
    l_rtma3d=${l_rtma3d},
    i_precip_vertical_check=${i_precip_vertical_check},
+   l_cld_uncertainty=${l_cld_uncertainty},
  /
 EOF
 
diff --git a/ush/config_defaults.sh b/ush/config_defaults.sh
index f5c0308e9..b0a9d9552 100644
--- a/ush/config_defaults.sh
+++ b/ush/config_defaults.sh
@@ -715,6 +715,7 @@ i_use_2mT4B=0
 i_T_Q_adjust=1
 l_rtma3d=.false.
 i_precip_vertical_check=0
+l_cld_uncertainty=.false.
 #  &CHEM 
 laeroana_fv3smoke=.false.
 berror_fv3_cmaq_regional=.false.