diff --git a/jobs/JREGIONAL_PROCESS_RADARREF b/jobs/JREGIONAL_PROCESS_RADARREF
index 6634afd98..af2875a66 100755
--- a/jobs/JREGIONAL_PROCESS_RADARREF
+++ b/jobs/JREGIONAL_PROCESS_RADARREF
@@ -78,7 +78,7 @@ mkdir_vrfy -p ${workdir}
 #-----------------------------------------------------------------------
 #
 $SCRIPTSDIR/exregional_process_radarref.sh \
-  CYCLE_DIR="${CYCLE_DIR}" WORKDIR="${workdir}" || \
+  CYCLE_DIR="${CYCLE_DIR}" cycle_type="${CYCLE_TYPE}" WORKDIR="${workdir}" || \
 print_err_msg_exit "\
 Call to ex-script corresponding to J-job \"${scrfunc_fn}\" failed."
 #
diff --git a/scripts/exregional_nonvarcldanl.sh b/scripts/exregional_nonvarcldanl.sh
index 88a209978..75400a89f 100755
--- a/scripts/exregional_nonvarcldanl.sh
+++ b/scripts/exregional_nonvarcldanl.sh
@@ -135,6 +135,7 @@ MM=${YYYYMMDDHH:4:2}
 DD=${YYYYMMDDHH:6:2}
 HH=${YYYYMMDDHH:8:2}
 YYYYMMDD=${YYYYMMDDHH:0:8}
+
 #
 #-----------------------------------------------------------------------
 #
@@ -168,17 +169,33 @@ else
     bkpath=${cycle_dir}${slash_ensmem_subdir}/fcst_fv3lam${cycle_tag}/INPUT
 fi
 
+n_iolayouty=$(($IO_LAYOUT_Y-1))
+list_iolayout=$(seq 0 $n_iolayouty)
+
 cp_vrfy ${fixgriddir}/fv3_akbk                               fv3_akbk
 cp_vrfy ${fixgriddir}/fv3_grid_spec                          fv3_grid_spec
 
-if [ -r ${bkpath}/phy_data.nc ]; then  # Use background from restart
-  ln_vrfy  -snf  ${bkpath}/fv_core.res.tile1.nc         fv3_dynvars
-  ln_vrfy  -snf  ${bkpath}/fv_tracer.res.tile1.nc       fv3_tracer
-  ln_vrfy -s ${bkpath}/sfc_data.nc                  fv3_sfcdata
+if [ -r "${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}/sfc_data.nc                  fv3_sfcdata
+  else
+    for ii in ${list_iolayout}
+    do
+      iii=$(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 ${bkpath}/sfc_data.nc.${iii}                  fv3_sfcdata.${iii}
+      ln_vrfy -s ${fixgriddir}/fv3_grid_spec.${iii}            fv3_grid_spec.${iii}
+    done
+  fi
+  BKTYPE=0
 else                                   # Use background from input (cold start)
   ln_vrfy -s ${bkpath}/sfc_data.tile7.halo0.nc      fv3_sfcdata
-  ln_vrfy  -snf  ${bkpath}/gfs_data.tile7.halo0.nc      fv3_dynvars
-  ln_vrfy  -snf  ${bkpath}/gfs_data.tile7.halo0.nc      fv3_tracer
+  ln_vrfy -s ${bkpath}/gfs_data.tile7.halo0.nc         fv3_dynvars
+  ln_vrfy -s ${bkpath}/gfs_data.tile7.halo0.nc         fv3_tracer
+  BKTYPE=1
 fi
 
 #
@@ -211,12 +228,47 @@ do
   fi
 done
 
+# radar reflectivity on esg grid over each subdomain.
+process_radarref_path=${cycle_dir}/process_radarref${cycle_tag}
+ss=0
+for bigmin in 0; do
+  bigmin=$( printf %2.2i $bigmin )
+  obs_file=${process_radarref_path}/${bigmin}/RefInGSI3D.dat
+  if [ "${IO_LAYOUT_Y}" == "1" ]; then
+    obs_file_check=${obs_file}
+  else
+    obs_file_check=${obs_file}.0000
+  fi
+  ((ss+=1))
+  num=$( printf %2.2i ${ss} )
+  if [ -r "${obs_file_check}" ]; then
+     if [ "${IO_LAYOUT_Y}" == "1" ]; then
+       cp_vrfy "${obs_file}" "RefInGSI3D.dat_${num}"
+     else
+       for ii in ${list_iolayout}
+       do
+         iii=$(printf %4.4i $ii)
+         cp_vrfy "${obs_file}.${iii}" "RefInGSI3D.dat.${iii}_${num}"
+       done
+     fi
+  else
+     print_info_msg "$VERBOSE" "Warning: ${obs_file} does not exist!"
+  fi
+done
+
 #-----------------------------------------------------------------------
 #
 # Build namelist 
 #
 #-----------------------------------------------------------------------
 
+if [ ${BKTYPE} -eq 1 ]; then
+  n_iolayouty=1
+else
+  n_iolayouty=$(($IO_LAYOUT_Y))
+fi
+
+
 cat << EOF > gsiparm.anl
 
  &SETUP
@@ -225,6 +277,7 @@ cat << EOF > gsiparm.anl
   iday=${DD},
   ihour=${HH},
   iminute=00,
+  fv3_io_layout_y=${n_iolayouty},
  /
  &RAPIDREFRESH_CLDSURF
    dfi_radar_latent_heat_time_period=20.0,
diff --git a/scripts/exregional_process_bufr.sh b/scripts/exregional_process_bufr.sh
index 9ff00b73a..94fe6535c 100755
--- a/scripts/exregional_process_bufr.sh
+++ b/scripts/exregional_process_bufr.sh
@@ -163,8 +163,6 @@ print_info_msg "$VERBOSE" "fixgriddir is $fixgriddir"
 #-----------------------------------------------------------------------
 
 cp_vrfy ${fixgriddir}/fv3_grid_spec          fv3sar_grid_spec.nc
-cp_vrfy ${fixgriddir}/geo_em.d01.nc          geo_em.d01.nc
-
 
 #-----------------------------------------------------------------------
 #
@@ -215,13 +213,14 @@ fi
 #                   1 for FV3LAM
 #-----------------------------------------------------------------------
 
-cat << EOF > lightning_bufr.namelist
+cat << EOF > namelist.lightning
  &setup
   analysis_time = ${YYYYMMDDHH},
   minute=00,
   trange_start=-10,
   trange_end=10,
-  bkversion=1,
+  grid_type = "${PREDEF_GRID_NAME}",
+  obs_type = "bufr"
  /
 
 EOF
@@ -233,7 +232,7 @@ EOF
 #
 #-----------------------------------------------------------------------
 #
-exect="process_Lightning_bufr.exe"
+exect="process_Lightning.exe"
 
 if [ -f ${EXECDIR}/$exect ]; then
   print_info_msg "$VERBOSE" "
@@ -270,7 +269,7 @@ obs_file=${OBSPATH}/${YYYYMMDDHH}.${obs_source}.t${HH}z.lgycld.tm00.bufr_d
 print_info_msg "$VERBOSE" "obsfile is $obs_file"
 run_cloud=false
 if [ -r "${obs_file}" ]; then
-   cp_vrfy "${obs_file}" "NASA_LaRC_cloud.bufr"
+   cp_vrfy "${obs_file}" "lgycld.bufr_d"
    run_cloud=true
 else
    print_info_msg "$VERBOSE" "Warning: ${obs_file} does not exist!"
@@ -291,13 +290,13 @@ fi
 #                   = 1 for FV3LAM
 #-----------------------------------------------------------------------
 
-cat << EOF > namelist_nasalarc
+cat << EOF > namelist.nasalarc
  &setup
   analysis_time = ${YYYYMMDDHH},
   bufrfile='NASALaRCCloudInGSI_bufr.bufr',
-  npts_rad=1,
+  npts_rad=3,
   ioption = 2,
-  bkversion=1,
+  grid_type = "${PREDEF_GRID_NAME}",
  /
 EOF
 
@@ -362,11 +361,13 @@ fi
 #
 #-----------------------------------------------------------------------
 
-cat << EOF > namelist_metarcld
+cat << EOF > namelist.metarcld
  &setup
   analysis_time = ${YYYYMMDDHH},
   prepbufrfile='prepbufr',
   twindin=0.5,
+  metar_impact_radius=15,
+  grid_type = "${PREDEF_GRID_NAME}",
  /
 EOF
 
diff --git a/scripts/exregional_process_lightning.sh b/scripts/exregional_process_lightning.sh
index 357a8c546..9a8eac93a 100755
--- a/scripts/exregional_process_lightning.sh
+++ b/scripts/exregional_process_lightning.sh
@@ -158,7 +158,6 @@ print_info_msg "$VERBOSE" "fixgriddir is $fixgriddir"
 #-----------------------------------------------------------------------
 
 cp_vrfy ${fixgriddir}/fv3_grid_spec          fv3sar_grid_spec.nc
-cp_vrfy ${fixgriddir}/geo_em.d01.nc          geo_em.d01.nc
 
 #-----------------------------------------------------------------------
 #
@@ -209,12 +208,12 @@ cp_vrfy $BUFR_TABLE prepobs_prep.bufrtable
 #                   = 1 for FV3LAM
 #-----------------------------------------------------------------------
 
-cat << EOF > lightning.namelist
+cat << EOF > namelist.lightning
  &setup
   analysis_time = ${YYYYMMDDHH},
   NLDN_filenum  = ${filenum},
-  IfAlaska    = false,
-  bkversion=1,
+  grid_type = "${PREDEF_GRID_NAME}",
+  obs_type = "nldn_nc"
  /
 
 EOF
@@ -226,7 +225,7 @@ EOF
 #
 #-----------------------------------------------------------------------
 #
-exect="process_Lightning_nc.exe"
+exect="process_Lightning.exe"
 
 if [ -f ${EXECDIR}/$exect ]; then
   print_info_msg "$VERBOSE" "
@@ -246,7 +245,7 @@ fi
 #
 #-----------------------------------------------------------------------
 #
-$APRUN ./${exect} < lightning.namelist > stdout 2>&1 || print_err_msg "\
+$APRUN ./${exect} < namelist.lightning > stdout 2>&1 || print_err_msg "\
 Call to executable to run lightning (nc) process returned with nonzero exit code."
 #
 #-----------------------------------------------------------------------
diff --git a/scripts/exregional_process_radarref.sh b/scripts/exregional_process_radarref.sh
index f1528982e..3df969f5d 100755
--- a/scripts/exregional_process_radarref.sh
+++ b/scripts/exregional_process_radarref.sh
@@ -55,7 +55,7 @@ with FV3 for the specified cycle.
 #
 #-----------------------------------------------------------------------
 #
-valid_args=( "CYCLE_DIR" "WORKDIR")
+valid_args=( "CYCLE_DIR" "cycle_type" "WORKDIR")
 process_args valid_args "$@"
 #
 #-----------------------------------------------------------------------
@@ -116,6 +116,7 @@ case $MACHINE in
   ;;
 #
 esac
+
 #
 #-----------------------------------------------------------------------
 #
@@ -134,6 +135,36 @@ MM=${YYYYMMDDHH:4:2}
 DD=${YYYYMMDDHH:6:2}
 HH=${YYYYMMDDHH:8:2}
 YYYYMMDD=${YYYYMMDDHH:0:8}
+
+#
+#-----------------------------------------------------------------------
+#
+# Find cycle type: cold or warm 
+#  BKTYPE=0: warm start
+#  BKTYPE=1: cold start
+#
+#-----------------------------------------------------------------------
+#
+BKTYPE=0
+if [ ${DO_SPINUP} == "TRUE" ]; then
+  if [ ${cycle_type} == "spinup" ]; then
+    for cyc_start in "${CYCL_HRS_SPINSTART[@]}"; do
+      if [ ${HH} -eq ${cyc_start} ]; then
+        BKTYPE=1
+      fi
+    done
+  fi
+else
+  for cyc_start in "${CYCL_HRS_PRODSTART[@]}"; do
+    if [ ${HH} -eq ${cyc_start} ]; then
+        BKTYPE=1
+    fi
+  done
+fi
+
+n_iolayouty=$(($IO_LAYOUT_Y-1))
+list_iolayout=$(seq 0 $n_iolayouty)
+
 #
 #-----------------------------------------------------------------------
 #
@@ -163,7 +194,19 @@ for bigmin in ${RADARREFL_TIMELEVEL[@]}; do
 #
 #-----------------------------------------------------------------------
 
-  cp_vrfy ${fixgriddir}/fv3_grid_spec          fv3sar_grid_spec.nc
+  if [ ${BKTYPE} -eq 1 ]; then
+    cp_vrfy ${fixgriddir}/fv3_grid_spec          fv3sar_grid_spec.nc
+  else
+    if [ "${IO_LAYOUT_Y}" == "1" ]; then
+      cp_vrfy ${fixgriddir}/fv3_grid_spec          fv3sar_grid_spec.nc
+    else
+      for ii in $list_iolayout
+      do
+        iii=$(printf %4.4i $ii)
+        cp_vrfy ${fixgriddir}/fv3_grid_spec.${iii}   fv3sar_grid_spec.nc.${iii}
+      done
+    fi
+  fi
 
 #
 #-----------------------------------------------------------------------
@@ -235,20 +278,24 @@ for bigmin in ${RADARREFL_TIMELEVEL[@]}; do
 #                   = 1 NSSL 1 tile grib2 for single level
 #                   = 4 NSSL 4 tiles binary
 #                   = 8 NSSL 8 tiles netcdf
-#   bkversion     : grid type (background will be used in the analysis)
-#                   0 for ARW  (default)
-#                   1 for FV3LAM
+#   fv3_io_layout_y : subdomain of restart files
 #   analysis_time : process obs used for this analysis date (YYYYMMDDHH)
 #   dataPath      : path of the radar reflectivity mosaic files.
 #
 #-----------------------------------------------------------------------
 
-cat << EOF > mosaic.namelist
+if [ ${BKTYPE} -eq 1 ]; then
+  n_iolayouty=1
+else
+  n_iolayouty=$(($IO_LAYOUT_Y))
+fi
+
+cat << EOF > namelist.mosaic
    &setup
     tversion=1,
-    bkversion=1,
     analysis_time = ${YYYYMMDDHH},
     dataPath = './',
+    fv3_io_layout_y=${n_iolayouty},
    /
 EOF
 
diff --git a/scripts/exregional_refl2tten.sh b/scripts/exregional_refl2tten.sh
index ce15787f0..f415f8200 100755
--- a/scripts/exregional_refl2tten.sh
+++ b/scripts/exregional_refl2tten.sh
@@ -171,19 +171,36 @@ else
     bkpath=${cycle_dir}${slash_ensmem_subdir}/fcst_fv3lam${cycle_tag}/INPUT
 fi
 
+n_iolayouty=$(($IO_LAYOUT_Y-1))
+list_iolayout=$(seq 0 $n_iolayouty)
+
 cp_vrfy ${fixgriddir}/fv3_akbk                               fv3_akbk
 cp_vrfy ${fixgriddir}/fv3_grid_spec                          fv3_grid_spec
 
-if [ -r ${bkpath}/phy_data.nc ]; then  # Use background from warm restart
-  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}/sfc_data.nc                  fv3_sfcdata
-  ln_vrfy -s ${bkpath}/phy_data.nc                  fv3_phydata
+if [ -r "${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}/sfc_data.nc                  fv3_sfcdata
+    ln_vrfy -s ${bkpath}/phy_data.nc                  fv3_phydata
+  else
+    for ii in ${list_iolayout}
+    do
+      iii=$(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 ${bkpath}/sfc_data.nc.${iii}                  fv3_sfcdata.${iii}
+      ln_vrfy -s ${bkpath}/phy_data.nc.${iii}                  fv3_phydata.${iii}
+      ln_vrfy -s ${fixgriddir}/fv3_grid_spec.${iii}            fv3_grid_spec.${iii}
+    done
+  fi
+  BKTYPE=0
 else                                   # Use background from cold start
   ln_vrfy -s ${bkpath}/sfc_data.tile7.halo0.nc      fv3_sfcdata
   ln_vrfy -s ${bkpath}/gfs_data.tile7.halo0.nc      fv3_dynvars
   ln_vrfy -s ${bkpath}/gfs_data.tile7.halo0.nc      fv3_tracer
   print_info_msg "$VERBOSE" "radar2tten is not ready for cold start"
+  BKTYPE=1
   exit 0
 fi
 
@@ -198,12 +215,25 @@ process_lightning_path=${cycle_dir}/process_lightning${cycle_tag}
 
 ss=0
 for bigmin in ${RADARREFL_TIMELEVEL[@]}; do
-  bigmin=$( printf %2.2i $bigmin ) 
+  bigmin=$( printf %2.2i $bigmin )
   obs_file=${process_radarref_path}/${bigmin}/RefInGSI3D.dat
+  if [ "${IO_LAYOUT_Y}" == "1" ]; then
+    obs_file_check=${obs_file}
+  else
+    obs_file_check=${obs_file}.0000
+  fi
   ((ss+=1))
   num=$( printf %2.2i ${ss} )
-  if [ -r "${obs_file}" ]; then
-     cp_vrfy "${obs_file}" "RefInGSI3D.dat_${num}"
+  if [ -r "${obs_file_check}" ]; then
+     if [ "${IO_LAYOUT_Y}" == "1" ]; then
+       cp_vrfy "${obs_file}" "RefInGSI3D.dat_${num}"
+     else
+       for ii in ${list_iolayout}
+       do
+         iii=$(printf %4.4i $ii)
+         cp_vrfy "${obs_file}.${iii}" "RefInGSI3D.dat.${iii}_${num}"
+       done
+     fi
   else
      print_info_msg "$VERBOSE" "Warning: ${obs_file} does not exist!"
   fi
@@ -227,6 +257,32 @@ bufr_table=${fixdir}/prepobs_prep_RAP.bufrtable
 # Fixed fields
 cp_vrfy $bufr_table prepobs_prep.bufrtable
 
+
+#-----------------------------------------------------------------------
+#
+# Build namelist and run executable 
+#
+#   fv3_io_layout_y : subdomain of restart files
+#
+#-----------------------------------------------------------------------
+
+if [ ${BKTYPE} -eq 1 ]; then
+  n_iolayouty=1
+else
+  n_iolayouty=$(($IO_LAYOUT_Y))
+fi
+
+cat << EOF > namelist.ref2tten
+   &setup
+    dfi_radar_latent_heat_time_period=15.0,
+    convection_refl_threshold=28.0,
+    l_tten_for_convection_only=.true.,
+    l_convection_suppress=.false.,
+    fv3_io_layout_y=${n_iolayouty},
+    timelevel=${ss},
+   /
+EOF
+
 #
 #-----------------------------------------------------------------------
 #
diff --git a/scripts/exregional_run_fcst.sh b/scripts/exregional_run_fcst.sh
index d8fba5694..77fdf3d1c 100755
--- a/scripts/exregional_run_fcst.sh
+++ b/scripts/exregional_run_fcst.sh
@@ -365,7 +365,7 @@ symlink="gfs_data.nc"
 if [ -f "${target}.0000" ]; then
   for ii in ${list_iolayout}
   do
-    iii=`printf %4.4i $ii`
+    iii=$(printf %4.4i $ii)
     if [ -f "${target}.${iii}" ]; then
       ln_vrfy -sf ${relative_or_null} $target.${iii} $symlink.${iii}
     else
diff --git a/scripts/exregional_run_post.sh b/scripts/exregional_run_post.sh
index 105a31def..ad188175b 100755
--- a/scripts/exregional_run_post.sh
+++ b/scripts/exregional_run_post.sh
@@ -233,7 +233,7 @@ if [ -r "$run_dir/RESTART/${restart_prefix}.coupler.res" ]; then
     for file in ${filelistn}; do
       for ii in ${list_iolayout}
       do
-        iii=`printf %4.4i $ii`
+        iii=$(printf %4.4i $ii)
         mv_vrfy $run_dir/RESTART/${restart_prefix}.${file}.${iii} ${nwges_dir}/RESTART/${restart_prefix}.${file}.${iii}
       done
     done
@@ -266,7 +266,7 @@ else
       for file in ${filelistn}; do
         for ii in ${list_iolayout}
         do
-          iii=`printf %4.4i $ii`
+          iii=$(printf %4.4i $ii)
           mv_vrfy $run_dir/RESTART/${file}.${iii} ${nwges_dir}/RESTART/${restart_prefix}.${file}.${iii}
         done
       done
diff --git a/scripts/exregional_run_prepstart.sh b/scripts/exregional_run_prepstart.sh
index 90d598e1c..10c892c17 100755
--- a/scripts/exregional_run_prepstart.sh
+++ b/scripts/exregional_run_prepstart.sh
@@ -310,7 +310,7 @@ else
       for file in ${filelistn}; do
         for ii in $list_iolayout
         do
-          iii=`printf %4.4i $ii`
+          iii=$(printf %4.4i $ii)
           cp_vrfy ${bkpath}/${restart_prefix}${file}.${iii}     ${file}.${iii}
         done
       done
@@ -330,7 +330,7 @@ else
       for file in ${filelistn}; do
         for ii in $list_iolayout
         do
-          iii=`printf %4.4i $ii`
+          iii=$(printf %4.4i $ii)
           ncatted -a checksum,,d,, ${file}.${iii}
         done
       done
@@ -376,7 +376,7 @@ EOF
      else
        for ii in ${list_iolayout}
        do
-         iii=`printf %4.4i $ii`
+         iii=$(printf %4.4i $ii)
          ln_vrfy -sf ${FIX_GSI}/${PREDEF_GRID_NAME}/fv3_grid_spec.${iii}  fv3_grid_spec
          ln_vrfy -sf sfc_data.nc.${iii} sfc_data.nc
          ${EXECDIR}/process_updatesst > stdout_sstupdate.${iii} 2>&1
@@ -472,7 +472,7 @@ if [ ${SFC_CYC} -eq 1 ] || [ ${SFC_CYC} -eq 2 ] ; then  # cycle surface fields
               checkfile=${bkpath_find}/${restart_prefix_find}sfc_data.nc
               for ii in ${list_iolayout}
               do
-                iii=`printf %4.4i $ii`
+                iii=$(printf %4.4i $ii)
                 cp_vrfy ${checkfile}.${iii}  ${restart_prefix_find}sfc_data.nc.${iii}
                 mv sfc_data.nc.${iii} gfsice.sfc_data.nc.${iii}
                 mv ${restart_prefix_find}sfc_data.nc.${iii} sfc_data.nc.${iii}
@@ -481,7 +481,7 @@ if [ ${SFC_CYC} -eq 1 ] || [ ${SFC_CYC} -eq 2 ] ; then  # cycle surface fields
               ls -l > list_cycle_sfc
               for ii in ${list_iolayout}
               do
-                iii=`printf %4.4i $ii`
+                iii=$(printf %4.4i $ii)
                 ln_vrfy -sf sfc_data.nc.${iii} sfc_data.nc
                 ln_vrfy -sf gfsice.sfc_data.nc.${iii} gfsice.sfc_data.nc
                 ${EXECDIR}/cycle_ice.exe > stdout_cycleICE.${iii} 2>&1
@@ -526,7 +526,7 @@ if [ ${HH} -eq ${GVF_update_hour} ] && [ ${cycle_type} == "spinup" ]; then
       else
         for ii in ${list_iolayout}
         do
-          iii=`printf %4.4i $ii`
+          iii=$(printf %4.4i $ii)
           ln_vrfy -sf ${FIX_GSI}/${PREDEF_GRID_NAME}/fv3_grid_spec.${iii}  fv3_grid_spec
           ln_vrfy -sf sfc_data.nc.${iii} sfc_data.nc
           ${EXECDIR}/update_GVF.exe > stdout_updateGVF.${iii} 2>&1
@@ -659,7 +659,7 @@ EOF
      else
        for ii in ${list_iolayout}
        do
-         iii=`printf %4.4i $ii`
+         iii=$(printf %4.4i $ii)
          ln_vrfy -sf ${FIX_GSI}/${PREDEF_GRID_NAME}/fv3_grid_spec.${iii}  fv3_grid_spec
          ln_vrfy -sf sfc_data.nc.${iii} sfc_data.nc
          ./${exect} > sfc_sugery_stdout.${iii} 2>&1 || print_info_msg "\
diff --git a/ush/config.sh.RRFS_CONUS_3km b/ush/config.sh.RRFS_CONUS_3km
index 326f7f3a3..3923b3992 100644
--- a/ush/config.sh.RRFS_CONUS_3km
+++ b/ush/config.sh.RRFS_CONUS_3km
@@ -36,47 +36,50 @@ TILE_SETS="full NE,NC,NW,SE,SC,SW"
 
 DO_DACYCLE="TRUE"
 #DO_SURFACE_CYCLE="TRUE"
-#DO_SPINUP="TRUE"
+DO_SPINUP="TRUE"
 DO_RETRO="TRUE"
-#DO_NONVAR_CLDANAL="TRUE"
-#DO_REFL2TTEN="TRUE"
-#RADARREFL_TIMELEVEL=(0 15 30 45)
-#FH_DFI_RADAR="0.0,0.25,0.5"
+DO_NONVAR_CLDANAL="TRUE"
+DO_REFL2TTEN="TRUE"
+RADARREFL_TIMELEVEL=(0 15 30 45)
+FH_DFI_RADAR="0.0,0.25,0.5"
 
 QUILTING="TRUE"
 CCPP_PHYS_SUITE="FV3_HRRR"
 
-BOUNDARY_LEN_HRS="21"
-EXTRN_MDL_LBCS_SEARCH_OFFSET_HRS="0"
+EXTRN_MDL_ICS_OFFSET_HRS="3"
+LBC_SPEC_INTVL_HRS="1"
+EXTRN_MDL_LBCS_OFFSET_HRS="6"
+BOUNDARY_LEN_HRS="18"
 
 # avaialble retro period:
 # 20210511-20210531; 20210718-20210801
 DATE_FIRST_CYCL="20210512"
-DATE_LAST_CYCL="20210513"
+DATE_LAST_CYCL="20210512"
 CYCL_HRS=( "00" "12" )
 CYCL_HRS_SPINSTART=("03" "15")
-CYCL_HRS_PRODSTART=("03" "15")
-#CYCLEMONTH="5"
-#CYCLEDAY="12-14"
+CYCL_HRS_PRODSTART=("09" "21")
+CYCLEMONTH="5"
+CYCLEDAY="12"
 
 PREEXISTING_DIR_METHOD="upgrade" # "rename"
 INITIAL_CYCLEDEF="${DATE_FIRST_CYCL}0300 ${DATE_LAST_CYCL}2300 12:00:00"
 BOUNDARY_CYCLEDEF="${DATE_FIRST_CYCL}0000 ${DATE_LAST_CYCL}2300 06:00:00"
-PROD_CYCLEDEF="${DATE_FIRST_CYCL}0300 ${DATE_LAST_CYCL}2300 01:00:00"
-POSTPROC_CYCLEDEF="${DATE_FIRST_CYCL}0300 ${DATE_LAST_CYCL}2300 01:00:00"
-POSTPROC_LONG_CYCLEDEF="${DATE_FIRST_CYCL}0300 ${DATE_LAST_CYCL}2300 03:00:00"
+PROD_CYCLEDEF="${DATE_FIRST_CYCL}0900 ${DATE_LAST_CYCL}2300 01:00:00"
+POSTPROC_CYCLEDEF="${DATE_FIRST_CYCL}0900 ${DATE_LAST_CYCL}2300 01:00:00"
+POSTPROC_LONG_CYCLEDEF="${DATE_FIRST_CYCL}0900 ${DATE_LAST_CYCL}2300 03:00:00"
 #ARCHIVE_CYCLEDEF="${DATE_FIRST_CYCL}0700 ${DATE_LAST_CYCL}2300 24:00:00"
 if [[ $DO_SPINUP == "TRUE" ]] ; then
   SPINUP_CYCLEDEF="00 03-08,15-20 ${CYCLEDAY} ${CYCLEMONTH} 2021 *"
 fi
 
 FCST_LEN_HRS="3"
-FCST_LEN_HRS_SPINUP="2"
+FCST_LEN_HRS_SPINUP="1"
 POSTPROC_LEN_HRS="3"
 POSTPROC_LONG_LEN_HRS="12"
 #FCST_LEN_HRS_CYCLES=(48 18 18 18 18 18 48 18 18 18 18 18 48 18 18 18 18 18 48 18 18 18 18 18)
 for i in {0..23}; do FCST_LEN_HRS_CYCLES[$i]=3; done
 for i in {0..23..3}; do FCST_LEN_HRS_CYCLES[$i]=12; done
+DA_CYCLE_INTERV="1"
 RESTART_INTERVAL="1"
 
 SST_update_hour=01
@@ -86,6 +89,9 @@ NCORES_RUN_ANAL=240
 NCORES_RUN_OBSERVER=80
 HYBENSMEM_NMIN=66
 HALO_BLEND=20
+IO_LAYOUT_Y=1
+PPN_RUN_REF2TTEN=1
+PPN_RUN_NONVARCLDANL=1
 
 if [[ -n $RESERVATION ]] ; then
   NNODES_MAKE_ICS="3"
diff --git a/ush/config.sh.RRFS_NA_3km b/ush/config.sh.RRFS_NA_3km
index 004c9e7c6..a26fd8848 100644
--- a/ush/config.sh.RRFS_NA_3km
+++ b/ush/config.sh.RRFS_NA_3km
@@ -76,6 +76,7 @@ RESTART_INTERVAL="1 2 3"
 
 SST_update_hour=01
 GVF_update_hour=04
+
 USE_FVCOM="TRUE"
 FVCOM_DIR="/mnt/lfs4/BMC/public/data/grids/glerl/owaq"
 FVCOM_FILE="tsfc_fv3grid"