diff --git a/ee/app/services/security/analyzers_status/update_service.rb b/ee/app/services/security/analyzers_status/update_service.rb
index 11db9808c438a4284c6ef602ca11b378c4530d9d..841bc08b5968227a30c341b40f86917c8ef468b2 100644
--- a/ee/app/services/security/analyzers_status/update_service.rb
+++ b/ee/app/services/security/analyzers_status/update_service.rb
@@ -129,8 +129,6 @@ def aggregated_statuses(analyzers_statuses)
       end
 
       def upsert_analyzers_statuses
-        return unless analyzers_statuses.present?
-
         AnalyzerProjectStatus.upsert_all(analyzers_statuses.values, unique_by: [:project_id, :analyzer_type])
         InventoryFilters::AnalyzerStatusUpdateService.execute([project], analyzers_statuses.values)
       end
diff --git a/ee/app/services/security/inventory_filters/analyzer_status_update_service.rb b/ee/app/services/security/inventory_filters/analyzer_status_update_service.rb
index d854a2db9df41002129cc71dde3e3d6e2aa9d48f..ae7728826320e901b02848c57da4538468b8ea44 100644
--- a/ee/app/services/security/inventory_filters/analyzer_status_update_service.rb
+++ b/ee/app/services/security/inventory_filters/analyzer_status_update_service.rb
@@ -25,18 +25,23 @@ def execute
       attr_reader :projects, :analyzer_statuses, :analyzer_type
 
       def upsert_inventory_filters_analyzer_statuses
-        return if inventory_filters_data.empty?
-
-        grouped_by_keys = inventory_filters_data.group_by do |record|
-          analyzer_keys = record.keys.select { |k| k.in?(Enums::Security.extended_analyzer_types.keys) }
-          analyzer_keys.sort
-        end
-
-        # upsert in groups based on analyzers records keys. There should be a single update for single project,
-        # and upto 2 updated for many projects because the bulk setting based update can only pass
-        # setting type and the aggregated type as input to this service.
-        grouped_by_keys.each_value do |records|
-          Security::InventoryFilter.upsert_all(records, unique_by: :project_id)
+        if inventory_filters_data.empty? && analyzer_statuses.present?
+          # NO-OP, this means there were projects and analyzer_statuses, but they didn't match up
+        elsif inventory_filters_data.empty?
+          # we need to create blank filter records for projects that don't have any analyzer_statuses
+          Security::InventoryFilter.upsert_all(projects_with_no_analyzer_statuses, unique_by: :project_id)
+        else
+          grouped_by_keys = inventory_filters_data.group_by do |record|
+            analyzer_keys = record.keys.select { |k| k.in?(Enums::Security.extended_analyzer_types.keys) }
+            analyzer_keys.sort
+          end
+
+          # upsert in groups based on analyzers records keys. There should be a single update for single project,
+          # and upto 2 updated for many projects because the bulk setting based update can only pass
+          # setting type and the aggregated type as input to this service.
+          grouped_by_keys.each_value do |records|
+            Security::InventoryFilter.upsert_all(records, unique_by: :project_id)
+          end
         end
       end
 
@@ -56,12 +61,18 @@ def inventory_filters_data
         end
       end
 
+      def projects_with_no_analyzer_statuses
+        projects.filter_map do |project|
+          build_inventory_filter_for_project(project.id, {})
+        end
+      end
+
       def grouped_analyzer_statuses
         @grouped_analyzer_statuses ||= analyzer_statuses.group_by { |status| status[:project_id] }
       end
 
       def build_inventory_filter_for_project(project_id, statuses)
-        return unless project_id.present? && statuses.present?
+        return unless project_id.present?
 
         project_attributes = project_id_to_attributes[project_id]
         return unless project_attributes.present?
diff --git a/ee/spec/services/security/analyzers_status/update_service_spec.rb b/ee/spec/services/security/analyzers_status/update_service_spec.rb
index 19fb8e35235a18e7cf24e8ee14098d4c77dcbbde..d01e954a0ae86844a5cb3238a8130073c6de01bb 100644
--- a/ee/spec/services/security/analyzers_status/update_service_spec.rb
+++ b/ee/spec/services/security/analyzers_status/update_service_spec.rb
@@ -359,7 +359,14 @@
           }.from(nil).to('not_configured')
         end
 
-        include_examples 'does not call inventory filters service'
+        it 'calls InventoryFilters service with pipeline and aggregated statuses' do
+          expect(inventory_filters_update_service).to receive(:execute).once.with(
+            [project], []
+          )
+
+          execute
+        end
+
         include_examples 'calls namespace related services'
       end
 
diff --git a/ee/spec/services/security/inventory_filters/analyzer_status_update_service_spec.rb b/ee/spec/services/security/inventory_filters/analyzer_status_update_service_spec.rb
index 091b4805161ab80cc036c5ab2f2ba5b01b6e78c8..18a96facdc65006a2b6af4184696fdd659e1a9c2 100644
--- a/ee/spec/services/security/inventory_filters/analyzer_status_update_service_spec.rb
+++ b/ee/spec/services/security/inventory_filters/analyzer_status_update_service_spec.rb
@@ -82,8 +82,8 @@
     context 'when analyzer_statuses is empty' do
       let(:analyzer_statuses) { [] }
 
-      it 'returns early' do
-        expect { service.execute }.not_to change { Security::InventoryFilter.count }
+      it 'processes the project' do
+        expect { service.execute }.to change { Security::InventoryFilter.count }
       end
     end