diff --git a/input_templates/terra_workspaces/cohort_mode/workspace.tsv.tmpl b/input_templates/terra_workspaces/cohort_mode/workspace.tsv.tmpl
index a8e6fe515..338ee108f 100644
--- a/input_templates/terra_workspaces/cohort_mode/workspace.tsv.tmpl
+++ b/input_templates/terra_workspaces/cohort_mode/workspace.tsv.tmpl
@@ -1,2 +1,2 @@
-workspace:cloud_sdk_docker	cnmops_docker	condense_counts_docker	gatk_docker	gatk_docker_pesr_override	gcnv_gatk_docker	genomes_in_the_cloud_docker	linux_docker	manta_docker	samtools_cloud_docker	sv_base_docker	sv_base_mini_docker	sv_pipeline_base_docker	sv_pipeline_docker  sv_pipeline_hail_docker  sv_pipeline_updates_docker	sv_pipeline_qc_docker	sv_pipeline_rdtest_docker	wham_docker	allosome_file	autosome_file	bin_exclude	cnmops_exclude_list	cohort_ped_file	contig_ploidy_priors	copy_number_autosomal_contigs	cytobands	dbsnp_vcf	delly_exclude_intervals_file	depth_exclude_list	empty_file	exclude_intervals_for_gcnv_filter_intervals	external_af_ref_bed	external_af_ref_bed_prefix	genome_file	inclusion_bed	linc_rna_gtf	manta_region_bed	mei_bed	melt_standard_vcf_header	noncoding_bed	pesr_exclude_list	preprocessed_intervals	primary_contigs_fai	primary_contigs_list	promoter_bed	protein_coding_gtf	reference_build	reference_dict	reference_fasta	reference_index	reference_version	rmsk	segdups	seed_cutoffs	unpadded_intervals_file	wgd_scoring_mask	wham_include_list_bed_file  chr_x   chr_y
-{{ dockers.cloud_sdk_docker }}	{{ dockers.cnmops_docker }}	{{ dockers.condense_counts_docker }}	{{ dockers.gatk_docker }}	{{ dockers.gatk_docker_pesr_override }}	{{ dockers.gatk_docker }}	{{ dockers.genomes_in_the_cloud_docker }}	{{ dockers.linux_docker }}	{{ dockers.manta_docker }}	{{ dockers.samtools_cloud_docker }}	{{ dockers.sv_base_docker }}	{{ dockers.sv_base_mini_docker }}	{{ dockers.sv_pipeline_base_docker }}	{{ dockers.sv_pipeline_docker }}    {{ dockers.sv_pipeline_hail_docker }}    {{ dockers.sv_pipeline_updates_docker }}	{{ dockers.sv_pipeline_qc_docker }}	{{ dockers.sv_pipeline_rdtest_docker }}	{{ dockers.wham_docker }}	{{ reference_resources.allosome_file }}	{{ reference_resources.autosome_file }}	{{ reference_resources.bin_exclude }}	{{ reference_resources.cnmops_exclude_list }}	gs://broad-dsde-methods-eph/ped_1kgp_all.ped	{{ reference_resources.contig_ploidy_priors }}	{{ reference_resources.copy_number_autosomal_contigs }}	{{ reference_resources.cytobands }}	{{ reference_resources.dbsnp_vcf }}	{{ reference_resources.delly_exclude_intervals_file }}	{{ reference_resources.depth_exclude_list }}	{{ reference_resources.empty_file }}	{{ reference_resources.exclude_intervals_for_gcnv_filter_intervals }}	{{ reference_resources.external_af_ref_bed | tojson }}	{{ reference_resources.external_af_ref_bed_prefix | tojson }}	{{ reference_resources.genome_file }}	{{ reference_resources.inclusion_bed }}	{{ reference_resources.linc_rna_gtf | tojson }}	{{ reference_resources.manta_region_bed }}	{{ reference_resources.mei_bed }}	{{ reference_resources.melt_std_vcf_header }}	{{ reference_resources.noncoding_bed | tojson }}	{{ reference_resources.pesr_exclude_list }}	{{ reference_resources.preprocessed_intervals }}	{{ reference_resources.primary_contigs_fai }}	{{ reference_resources.primary_contigs_list }}	{{ reference_resources.promoter_bed | tojson }}	{{ reference_resources.protein_coding_gtf | tojson }}	{{ reference_resources.reference_build }}	{{ reference_resources.reference_dict }}	{{ reference_resources.reference_fasta }}	{{ reference_resources.reference_index }}	{{ reference_resources.reference_version }}	{{ reference_resources.rmsk }}	{{ reference_resources.segdups }}	{{ reference_resources.seed_cutoffs }}	{{ reference_resources.unpadded_intervals_file }}	{{ reference_resources.wgd_scoring_mask }}	{{ reference_resources.wham_include_list_bed_file }}    {{ reference_resources.chr_x }} {{ reference_resources.chr_y }}
+workspace:cloud_sdk_docker	cnmops_docker	condense_counts_docker	gatk_docker	gatk_docker_pesr_override	gcnv_gatk_docker	genomes_in_the_cloud_docker	linux_docker	manta_docker	samtools_cloud_docker	sv_base_docker	sv_base_mini_docker	sv_pipeline_base_docker	sv_pipeline_docker	sv_pipeline_hail_docker	sv_pipeline_updates_docker	sv_pipeline_qc_docker	sv_pipeline_rdtest_docker	wham_docker	allosome_file	autosome_file	bin_exclude	cnmops_exclude_list	cohort_ped_file	contig_ploidy_priors	copy_number_autosomal_contigs	cytobands	dbsnp_vcf	delly_exclude_intervals_file	depth_exclude_list	empty_file	exclude_intervals_for_gcnv_filter_intervals	external_af_ref_bed	external_af_ref_bed_prefix	genome_file	inclusion_bed	linc_rna_gtf	manta_region_bed	mei_bed	melt_standard_vcf_header	noncoding_bed	pesr_exclude_list	preprocessed_intervals	primary_contigs_fai	primary_contigs_list	promoter_bed	protein_coding_gtf	reference_build	reference_dict	reference_fasta	reference_index	reference_version	rmsk	segdups	seed_cutoffs	unpadded_intervals_file	wgd_scoring_mask	wham_include_list_bed_file	chr_x	chr_y
+{{ dockers.cloud_sdk_docker }}	{{ dockers.cnmops_docker }}	{{ dockers.condense_counts_docker }}	{{ dockers.gatk_docker }}	{{ dockers.gatk_docker_pesr_override }}	{{ dockers.gatk_docker }}	{{ dockers.genomes_in_the_cloud_docker }}	{{ dockers.linux_docker }}	{{ dockers.manta_docker }}	{{ dockers.samtools_cloud_docker }}	{{ dockers.sv_base_docker }}	{{ dockers.sv_base_mini_docker }}	{{ dockers.sv_pipeline_base_docker }}	{{ dockers.sv_pipeline_docker }}	{{ dockers.sv_pipeline_hail_docker }}	{{ dockers.sv_pipeline_updates_docker }}	{{ dockers.sv_pipeline_qc_docker }}	{{ dockers.sv_pipeline_rdtest_docker }}	{{ dockers.wham_docker }}	{{ reference_resources.allosome_file }}	{{ reference_resources.autosome_file }}	{{ reference_resources.bin_exclude }}	{{ reference_resources.cnmops_exclude_list }}	gs://broad-dsde-methods-eph/ped_1kgp_all.ped	{{ reference_resources.contig_ploidy_priors }}	{{ reference_resources.copy_number_autosomal_contigs }}	{{ reference_resources.cytobands }}	{{ reference_resources.dbsnp_vcf }}	{{ reference_resources.delly_exclude_intervals_file }}	{{ reference_resources.depth_exclude_list }}	{{ reference_resources.empty_file }}	{{ reference_resources.exclude_intervals_for_gcnv_filter_intervals }}	{{ reference_resources.external_af_ref_bed | tojson }}	{{ reference_resources.external_af_ref_bed_prefix | tojson }}	{{ reference_resources.genome_file }}	{{ reference_resources.inclusion_bed }}	{{ reference_resources.linc_rna_gtf | tojson }}	{{ reference_resources.manta_region_bed }}	{{ reference_resources.mei_bed }}	{{ reference_resources.melt_std_vcf_header }}	{{ reference_resources.noncoding_bed | tojson }}	{{ reference_resources.pesr_exclude_list }}	{{ reference_resources.preprocessed_intervals }}	{{ reference_resources.primary_contigs_fai }}	{{ reference_resources.primary_contigs_list }}	{{ reference_resources.promoter_bed | tojson }}	{{ reference_resources.protein_coding_gtf | tojson }}	{{ reference_resources.reference_build }}	{{ reference_resources.reference_dict }}	{{ reference_resources.reference_fasta }}	{{ reference_resources.reference_index }}	{{ reference_resources.reference_version }}	{{ reference_resources.rmsk }}	{{ reference_resources.segdups }}	{{ reference_resources.seed_cutoffs }}	{{ reference_resources.unpadded_intervals_file }}	{{ reference_resources.wgd_scoring_mask }}	{{ reference_resources.wham_include_list_bed_file }}	{{ reference_resources.chr_x }}	{{ reference_resources.chr_y }}
diff --git a/input_templates/terra_workspaces/single_sample/workspace.tsv.tmpl b/input_templates/terra_workspaces/single_sample/workspace.tsv.tmpl
index ba6e6ff4f..b24d213f7 100644
--- a/input_templates/terra_workspaces/single_sample/workspace.tsv.tmpl
+++ b/input_templates/terra_workspaces/single_sample/workspace.tsv.tmpl
@@ -1,2 +1,2 @@
-workspace:cnmops_docker	condense_counts_docker	gatk_docker	gatk_docker_pesr_override	genomes_in_the_cloud_docker	linux_docker	manta_docker	samtools_cloud_docker	sv_base_docker	sv_base_mini_docker	sv_pipeline_base_docker	sv_pipeline_docker  sv_pipeline_hail_docker  sv_pipeline_updates_docker	sv_pipeline_qc_docker	sv_pipeline_rdtest_docker	wham_docker	ref_panel_name	ref_panel_bincov_matrix	ref_panel_contig_ploidy_model_tar	ref_panel_cutoffs	ref_panel_del_bed	ref_panel_dup_bed	ref_panel_genotype_pesr_pesr_sepcutoff	ref_panel_genotype_pesr_depth_sepcutoff	ref_panel_genotype_depth_pesr_sepcutoff	ref_panel_genotype_depth_depth_sepcutoff	ref_panel_ped_file	ref_panel_PE_metrics	ref_panel_qc_definitions	ref_panel_requester_pays_crams	ref_panel_SR_metrics	ref_panel_vcf	reference_name	reference_allosome_file	reference_autosome_file	reference_bin_exclude	reference_cnmops_exclude_list	reference_contig_ploidy_priors	reference_copy_number_autosomal_contigs	reference_cytobands	reference_dbsnp_vcf	reference_delly_exclude_intervals_file	reference_depth_exclude_list	reference_empty_file	reference_exclude_intervals_for_gcnv_filter_intervals	reference_external_af_ref_bed	reference_external_af_ref_bed_prefix	reference_genome_file	reference_inclusion_bed	reference_linc_rna_gtf	reference_manta_region_bed	reference_mei_bed	reference_melt_std_vcf_header	reference_noncoding_bed	reference_pesr_exclude_list	reference_preprocessed_intervals	reference_primary_contigs_list	reference_primary_contigs_fai	reference_promoter_bed	reference_protein_coding_gtf	reference_dict	reference_fasta	reference_index	reference_version	reference_rmsk	reference_segdups	reference_seed_cutoffs	reference_unpadded_intervals_file	reference_wgd_scoring_mask	reference_wham_include_list_bed_file
-{{ dockers.cnmops_docker }}	{{ dockers.condense_counts_docker }}	{{ dockers.gatk_docker }}	{{ dockers.gatk_docker_pesr_override }}	{{ dockers.genomes_in_the_cloud_docker }}	{{ dockers.linux_docker }}	{{ dockers.manta_docker }}	{{ dockers.samtools_cloud_docker }}	{{ dockers.sv_base_docker }}	{{ dockers.sv_base_mini_docker }}	{{ dockers.sv_pipeline_base_docker }}	{{ dockers.sv_pipeline_docker }}    {{ dockers.sv_pipeline_hail_docker }}    {{ dockers.sv_pipeline_updates_docker }}	{{ dockers.sv_pipeline_qc_docker }}	{{ dockers.sv_pipeline_rdtest_docker }}	{{ dockers.wham_docker }}	{{ ref_panel.name }}	{{ ref_panel.bincov_matrix }}	{{ ref_panel.contig_ploidy_model_tar }}	{{ ref_panel.cutoffs }}	{{ ref_panel.del_bed }}	{{ ref_panel.dup_bed }}	{{ ref_panel.genotype_pesr_pesr_sepcutoff }}	{{ ref_panel.genotype_pesr_depth_sepcutoff }}	{{ ref_panel.genotype_depth_pesr_sepcutoff }}	{{ ref_panel.genotype_depth_depth_sepcutoff }}	{{ ref_panel.ped_file }}	{{ ref_panel.PE_metrics }}	{{ ref_panel.qc_definitions }}	{{ ref_panel.requester_pays_crams }}	{{ ref_panel.SR_metrics }}	{{ ref_panel.vcf }}	{{ reference_resources.name }}	{{ reference_resources.allosome_file }}	{{ reference_resources.autosome_file }}	{{ reference_resources.bin_exclude }}	{{ reference_resources.cnmops_exclude_list }}	{{ reference_resources.contig_ploidy_priors }}	{{ reference_resources.copy_number_autosomal_contigs }}	{{ reference_resources.cytobands }}	{{ reference_resources.dbsnp_vcf }}	{{ reference_resources.delly_exclude_intervals_file }}	{{ reference_resources.depth_exclude_list }}	{{ reference_resources.empty_file }}	{{ reference_resources.exclude_intervals_for_gcnv_filter_intervals }}	{{ reference_resources.external_af_ref_bed }}	{{ reference_resources.external_af_ref_bed_prefix }}	{{ reference_resources.genome_file }}	{{ reference_resources.inclusion_bed }}	{{ reference_resources.linc_rna_gtf }}	{{ reference_resources.manta_region_bed }}	{{ reference_resources.mei_bed }}	{{ reference_resources.melt_std_vcf_header }}	{{ reference_resources.noncoding_bed }}	{{ reference_resources.pesr_exclude_list }}	{{ reference_resources.preprocessed_intervals }}	{{ reference_resources.primary_contigs_list }}	{{ reference_resources.primary_contigs_fai }}	{{ reference_resources.promoter_bed }}	{{ reference_resources.protein_coding_gtf }}	{{ reference_resources.reference_dict }}	{{ reference_resources.reference_fasta }}	{{ reference_resources.reference_index }}	{{ reference_resources.reference_version }}	{{ reference_resources.rmsk }}	{{ reference_resources.segdups }}	{{ reference_resources.seed_cutoffs }}	{{ reference_resources.unpadded_intervals_file }}	{{ reference_resources.wgd_scoring_mask }}	{{ reference_resources.wham_include_list_bed_file }}
+workspace:cnmops_docker	condense_counts_docker	gatk_docker	gatk_docker_pesr_override	genomes_in_the_cloud_docker	linux_docker	manta_docker	samtools_cloud_docker	sv_base_docker	sv_base_mini_docker	sv_pipeline_base_docker	sv_pipeline_docker	sv_pipeline_hail_docker	sv_pipeline_updates_docker	sv_pipeline_qc_docker	sv_pipeline_rdtest_docker	wham_docker	ref_panel_name	ref_panel_bincov_matrix	ref_panel_contig_ploidy_model_tar	ref_panel_cutoffs	ref_panel_del_bed	ref_panel_dup_bed	ref_panel_genotype_pesr_pesr_sepcutoff	ref_panel_genotype_pesr_depth_sepcutoff	ref_panel_genotype_depth_pesr_sepcutoff	ref_panel_genotype_depth_depth_sepcutoff	ref_panel_ped_file	ref_panel_PE_metrics	ref_panel_qc_definitions	ref_panel_requester_pays_crams	ref_panel_SR_metrics	ref_panel_vcf	reference_name	reference_allosome_file	reference_autosome_file	reference_bin_exclude	reference_cnmops_exclude_list	reference_contig_ploidy_priors	reference_copy_number_autosomal_contigs	reference_cytobands	reference_dbsnp_vcf	reference_delly_exclude_intervals_file	reference_depth_exclude_list	reference_empty_file	reference_exclude_intervals_for_gcnv_filter_intervals	reference_external_af_ref_bed	reference_external_af_ref_bed_prefix	reference_genome_file	reference_inclusion_bed	reference_linc_rna_gtf	reference_manta_region_bed	reference_mei_bed	reference_melt_std_vcf_header	reference_noncoding_bed	reference_pesr_exclude_list	reference_preprocessed_intervals	reference_primary_contigs_list	reference_primary_contigs_fai	reference_promoter_bed	reference_protein_coding_gtf	reference_dict	reference_fasta	reference_index	reference_version	reference_rmsk	reference_segdups	reference_seed_cutoffs	reference_unpadded_intervals_file	reference_wgd_scoring_mask	reference_wham_include_list_bed_file
+{{ dockers.cnmops_docker }}	{{ dockers.condense_counts_docker }}	{{ dockers.gatk_docker }}	{{ dockers.gatk_docker_pesr_override }}	{{ dockers.genomes_in_the_cloud_docker }}	{{ dockers.linux_docker }}	{{ dockers.manta_docker }}	{{ dockers.samtools_cloud_docker }}	{{ dockers.sv_base_docker }}	{{ dockers.sv_base_mini_docker }}	{{ dockers.sv_pipeline_base_docker }}	{{ dockers.sv_pipeline_docker }}	{{ dockers.sv_pipeline_hail_docker }}	{{ dockers.sv_pipeline_updates_docker }}	{{ dockers.sv_pipeline_qc_docker }}	{{ dockers.sv_pipeline_rdtest_docker }}	{{ dockers.wham_docker }}	{{ ref_panel.name }}	{{ ref_panel.bincov_matrix }}	{{ ref_panel.contig_ploidy_model_tar }}	{{ ref_panel.cutoffs }}	{{ ref_panel.del_bed }}	{{ ref_panel.dup_bed }}	{{ ref_panel.genotype_pesr_pesr_sepcutoff }}	{{ ref_panel.genotype_pesr_depth_sepcutoff }}	{{ ref_panel.genotype_depth_pesr_sepcutoff }}	{{ ref_panel.genotype_depth_depth_sepcutoff }}	{{ ref_panel.ped_file }}	{{ ref_panel.PE_metrics }}	{{ ref_panel.qc_definitions }}	{{ ref_panel.requester_pays_crams }}	{{ ref_panel.SR_metrics }}	{{ ref_panel.vcf }}	{{ reference_resources.name }}	{{ reference_resources.allosome_file }}	{{ reference_resources.autosome_file }}	{{ reference_resources.bin_exclude }}	{{ reference_resources.cnmops_exclude_list }}	{{ reference_resources.contig_ploidy_priors }}	{{ reference_resources.copy_number_autosomal_contigs }}	{{ reference_resources.cytobands }}	{{ reference_resources.dbsnp_vcf }}	{{ reference_resources.delly_exclude_intervals_file }}	{{ reference_resources.depth_exclude_list }}	{{ reference_resources.empty_file }}	{{ reference_resources.exclude_intervals_for_gcnv_filter_intervals }}	{{ reference_resources.external_af_ref_bed }}	{{ reference_resources.external_af_ref_bed_prefix }}	{{ reference_resources.genome_file }}	{{ reference_resources.inclusion_bed }}	{{ reference_resources.linc_rna_gtf }}	{{ reference_resources.manta_region_bed }}	{{ reference_resources.mei_bed }}	{{ reference_resources.melt_std_vcf_header }}	{{ reference_resources.noncoding_bed }}	{{ reference_resources.pesr_exclude_list }}	{{ reference_resources.preprocessed_intervals }}	{{ reference_resources.primary_contigs_list }}	{{ reference_resources.primary_contigs_fai }}	{{ reference_resources.promoter_bed }}	{{ reference_resources.protein_coding_gtf }}	{{ reference_resources.reference_dict }}	{{ reference_resources.reference_fasta }}	{{ reference_resources.reference_index }}	{{ reference_resources.reference_version }}	{{ reference_resources.rmsk }}	{{ reference_resources.segdups }}	{{ reference_resources.seed_cutoffs }}	{{ reference_resources.unpadded_intervals_file }}	{{ reference_resources.wgd_scoring_mask }}	{{ reference_resources.wham_include_list_bed_file }}
diff --git a/wdl/CleanVcfChromosome.wdl b/wdl/CleanVcfChromosome.wdl
index 2a1230da4..5cdea79fc 100644
--- a/wdl/CleanVcfChromosome.wdl
+++ b/wdl/CleanVcfChromosome.wdl
@@ -727,6 +727,7 @@ task FinalCleanup {
       --prefix ~{prefix} \
       ~{vcf} stdout \
       | fgrep -v "##INFO=<ID=HIGH_SR_BACKGROUND" \
+      | /opt/sv-pipeline/04_variant_resolution/scripts/sanitize_filter_field.py stdin stdout \
       | fgrep -v "##INFO=<ID=MEMBERS,Number=.,Type=String," \
       | bgzip -c \
       > ~{prefix}.vcf.gz
diff --git a/wdl/GATKSVPipelineSingleSample.wdl b/wdl/GATKSVPipelineSingleSample.wdl
index bd5554005..d4ca1d3ff 100644
--- a/wdl/GATKSVPipelineSingleSample.wdl
+++ b/wdl/GATKSVPipelineSingleSample.wdl
@@ -396,7 +396,6 @@ workflow GATKSVPipelineSingleSample {
     RuntimeAttr? runtime_override_breakpoint_overlap_filter
 
     # overrides for mini tasks
-    RuntimeAttr? runtime_override_ids_from_vcf
     RuntimeAttr? runtime_override_clean_background_fail
     RuntimeAttr? runtime_override_make_cpx_cnv_input_file
     RuntimeAttr? runtime_override_subset_inversions
@@ -474,8 +473,6 @@ workflow GATKSVPipelineSingleSample {
     RuntimeAttr? runtime_override_fix_header_regeno
 
     # overrides for CleanVcfContig
-    RuntimeAttr? runtime_attr_ids_from_vcf_clean
-    RuntimeAttr? runtime_attr_subset_ped_clean
     RuntimeAttr? runtime_override_preconcat_clean_final
     RuntimeAttr? runtime_override_hail_merge_clean_final
     RuntimeAttr? runtime_override_fix_header_clean_final
@@ -1109,7 +1106,6 @@ workflow GATKSVPipelineSingleSample {
       runtime_override_rename_variants=runtime_override_rename_variants,
       runtime_override_rename_cleaned_samples=runtime_override_rename_cleaned_samples,
       runtime_override_breakpoint_overlap_filter=runtime_override_breakpoint_overlap_filter,
-      runtime_override_ids_from_vcf=runtime_override_ids_from_vcf,
       runtime_override_clean_background_fail=runtime_override_clean_background_fail,
       runtime_override_make_cpx_cnv_input_file=runtime_override_make_cpx_cnv_input_file,
       runtime_override_subset_inversions=runtime_override_subset_inversions,
@@ -1177,8 +1173,6 @@ workflow GATKSVPipelineSingleSample {
       runtime_override_preconcat_regeno=runtime_override_preconcat_regeno,
       runtime_override_hail_merge_regeno=runtime_override_hail_merge_regeno,
       runtime_override_fix_header_regeno=runtime_override_fix_header_regeno,
-      runtime_attr_ids_from_vcf_clean=runtime_attr_ids_from_vcf_clean,
-      runtime_attr_subset_ped_clean=runtime_attr_subset_ped_clean,
       runtime_override_preconcat_clean_final=runtime_override_preconcat_clean_final,
       runtime_override_hail_merge_clean_final=runtime_override_hail_merge_clean_final,
       runtime_override_fix_header_clean_final=runtime_override_fix_header_clean_final,