diff --git a/app/assets/javascripts/gl_dropdown.js.coffee b/app/assets/javascripts/gl_dropdown.js.coffee
index b49bd4565a7..2a8a1f05b35 100644
--- a/app/assets/javascripts/gl_dropdown.js.coffee
+++ b/app/assets/javascripts/gl_dropdown.js.coffee
@@ -302,6 +302,9 @@ class GitLabDropdown
     if @options.setIndeterminateIds
       @options.setIndeterminateIds.call(@)
 
+    if @options.setActiveIds
+      @options.setActiveIds.call(@)
+
     # Makes indeterminate items effective
     if @fullData and @dropdown.find('.dropdown-menu-toggle').hasClass('js-filter-bulk-update')
       @parseData @fullData
diff --git a/app/assets/javascripts/labels_select.js.coffee b/app/assets/javascripts/labels_select.js.coffee
index d350a7c0e7f..6a10db10eb1 100644
--- a/app/assets/javascripts/labels_select.js.coffee
+++ b/app/assets/javascripts/labels_select.js.coffee
@@ -210,9 +210,21 @@ class @LabelsSelect
 
           if $dropdown.hasClass('js-filter-bulk-update')
             indeterminate = instance.indeterminateIds
+            active = instance.activeIds
+
             if indeterminate.indexOf(label.id) isnt -1
               selectedClass.push 'is-indeterminate'
 
+            if active.indexOf(label.id) isnt -1
+              # Remove is-indeterminate class if the item will be marked as active
+              i = selectedClass.indexOf 'is-indeterminate'
+              selectedClass.splice i, 1 unless i is -1
+
+              selectedClass.push 'is-active'
+
+              # Add input manually
+              instance.addInput @fieldName, label.id
+
           if $form.find("input[type='hidden']\
             [name='#{$dropdown.data('fieldName')}']\
             [value='#{this.id(label)}']").length
@@ -328,6 +340,10 @@ class @LabelsSelect
         setIndeterminateIds: ->
           if @dropdown.find('.dropdown-menu-toggle').hasClass('js-filter-bulk-update')
             @indeterminateIds = _this.getIndeterminateIds()
+
+        setActiveIds: ->
+          if @dropdown.find('.dropdown-menu-toggle').hasClass('js-filter-bulk-update')
+            @activeIds = _this.getActiveIds()
       )
 
     @bindEvents()
@@ -352,3 +368,12 @@ class @LabelsSelect
       label_ids.push $("#issue_#{issue_id}").data('labels')
 
     _.flatten(label_ids)
+
+  getActiveIds: ->
+    label_ids = []
+
+    $('.selected_issue:checked').each (i, el) ->
+      issue_id = $(el).data('id')
+      label_ids.push $("#issue_#{issue_id}").data('labels')
+
+    _.intersection.apply _, label_ids
diff --git a/spec/features/issues/bulk_assigment_labels_spec.rb b/spec/features/issues/bulk_assignment_labels_spec.rb
similarity index 97%
rename from spec/features/issues/bulk_assigment_labels_spec.rb
rename to spec/features/issues/bulk_assignment_labels_spec.rb
index 0fbc2062e39..7143d0e40f3 100644
--- a/spec/features/issues/bulk_assigment_labels_spec.rb
+++ b/spec/features/issues/bulk_assignment_labels_spec.rb
@@ -190,7 +190,8 @@ feature 'Issues > Labels bulk assignment', feature: true do
       end
       if unmark
         items.map do |item|
-          click_link item
+          # Make sure we are unmarking the item no matter the state it has currently
+          click_link item until find('a', text: item)[:class] == 'label-item'
         end
       end
     end