diff --git a/apm/package.json b/apm/package.json
index 4ddb4dabe..d4fcc851a 100644
--- a/apm/package.json
+++ b/apm/package.json
@@ -6,6 +6,6 @@
     "url": "https://github.com/atom/atom.git"
   },
   "dependencies": {
-    "atom-package-manager": "1.9.3"
+    "atom-package-manager": "1.10.0"
   }
 }
diff --git a/package.json b/package.json
index 6d390354d..814ba0033 100644
--- a/package.json
+++ b/package.json
@@ -36,7 +36,7 @@
     "key-path-helpers": "^0.4.0",
     "less-cache": "0.23",
     "line-top-index": "0.2.0",
-    "marked": "^0.3.4",
+    "marked": "^0.3.5",
     "normalize-package-data": "^2.0.0",
     "nslog": "^3",
     "ohnogit": "0.0.11",
@@ -77,7 +77,7 @@
     "autocomplete-atom-api": "0.10.0",
     "autocomplete-css": "0.11.1",
     "autocomplete-html": "0.7.2",
-    "autocomplete-plus": "2.30.0",
+    "autocomplete-plus": "2.31.0",
     "autocomplete-snippets": "1.10.0",
     "autoflow": "0.27.0",
     "autosave": "0.23.1",
@@ -87,7 +87,7 @@
     "command-palette": "0.38.0",
     "deprecation-cop": "0.54.1",
     "dev-live-reload": "0.47.0",
-    "encoding-selector": "0.21.0",
+    "encoding-selector": "0.22.0",
     "exception-reporting": "0.38.1",
     "fuzzy-finder": "1.0.5",
     "git-diff": "1.0.1",
@@ -97,20 +97,20 @@
     "image-view": "0.57.0",
     "incompatible-packages": "0.26.1",
     "keybinding-resolver": "0.35.0",
-    "line-ending-selector": "0.4.1",
+    "line-ending-selector": "0.5.0",
     "link": "0.31.1",
     "markdown-preview": "0.158.0",
     "metrics": "0.53.1",
     "notifications": "0.63.2",
     "open-on-github": "1.1.0",
     "package-generator": "1.0.0",
-    "settings-view": "0.235.1",
+    "settings-view": "0.236.0",
     "snippets": "1.0.2",
     "spell-check": "0.67.1",
     "status-bar": "1.2.6",
     "styleguide": "0.45.2",
-    "symbols-view": "0.112.0",
-    "tabs": "0.93.1",
+    "symbols-view": "0.113.0",
+    "tabs": "0.93.2",
     "timecop": "0.33.1",
     "tree-view": "0.206.2",
     "update-package-dependencies": "0.10.0",
diff --git a/spec/command-registry-spec.coffee b/spec/command-registry-spec.coffee
index ecdd42fd6..aaf044b1d 100644
--- a/spec/command-registry-spec.coffee
+++ b/spec/command-registry-spec.coffee
@@ -74,6 +74,13 @@ describe "CommandRegistry", ->
       grandchild.dispatchEvent(new CustomEvent('command', bubbles: true))
       expect(calls).toEqual ['.foo.bar', '.bar', '.foo']
 
+    it "orders inline listeners by reverse registration order", ->
+      calls = []
+      registry.add child, 'command', -> calls.push('child1')
+      registry.add child, 'command', -> calls.push('child2')
+      child.dispatchEvent(new CustomEvent('command', bubbles: true))
+      expect(calls).toEqual ['child2', 'child1']
+
     it "stops bubbling through ancestors when .stopPropagation() is called on the event", ->
       calls = []
 
diff --git a/spec/pane-spec.coffee b/spec/pane-spec.coffee
index 9969b1dcc..8abbb0ece 100644
--- a/spec/pane-spec.coffee
+++ b/spec/pane-spec.coffee
@@ -917,6 +917,82 @@ describe "Pane", ->
       expect(item1.save).not.toHaveBeenCalled()
       expect(pane.isDestroyed()).toBe false
 
+    describe "when item fails to save", ->
+      [pane, item1, item2] = []
+
+      beforeEach ->
+        pane = new Pane({items: [new Item("A"), new Item("B")], applicationDelegate: atom.applicationDelegate, config: atom.config})
+        [item1, item2] = pane.getItems()
+
+        item1.shouldPromptToSave = -> true
+        item1.getURI = -> "/test/path"
+
+        item1.save = jasmine.createSpy("save").andCallFake ->
+          error = new Error("EACCES, permission denied '/test/path'")
+          error.path = '/test/path'
+          error.code = 'EACCES'
+          throw error
+
+      it "does not destroy the pane if save fails and user clicks cancel", ->
+        confirmations = 0
+        confirm.andCallFake ->
+          confirmations++
+          if confirmations is 1
+            return 0 # click save
+          else
+            return 1 # click cancel
+
+        pane.close()
+
+        expect(atom.applicationDelegate.confirm).toHaveBeenCalled()
+        expect(confirmations).toBe(2)
+        expect(item1.save).toHaveBeenCalled()
+        expect(pane.isDestroyed()).toBe false
+
+      it "does destroy the pane if the user saves the file under a new name", ->
+        item1.saveAs = jasmine.createSpy("saveAs").andReturn(true)
+
+        confirmations = 0
+        confirm.andCallFake ->
+          confirmations++
+          return 0 # save and then save as
+
+        showSaveDialog.andReturn("new/path")
+
+        pane.close()
+
+        expect(atom.applicationDelegate.confirm).toHaveBeenCalled()
+        expect(confirmations).toBe(2)
+        expect(atom.applicationDelegate.showSaveDialog).toHaveBeenCalled()
+        expect(item1.save).toHaveBeenCalled()
+        expect(item1.saveAs).toHaveBeenCalled()
+        expect(pane.isDestroyed()).toBe true
+
+      it "asks again if the saveAs also fails", ->
+        item1.saveAs = jasmine.createSpy("saveAs").andCallFake ->
+          error = new Error("EACCES, permission denied '/test/path'")
+          error.path = '/test/path'
+          error.code = 'EACCES'
+          throw error
+
+        confirmations = 0
+        confirm.andCallFake ->
+          confirmations++
+          if confirmations < 3
+            return 0 # save, save as, save as
+          return 2 # don't save
+
+        showSaveDialog.andReturn("new/path")
+
+        pane.close()
+
+        expect(atom.applicationDelegate.confirm).toHaveBeenCalled()
+        expect(confirmations).toBe(3)
+        expect(atom.applicationDelegate.showSaveDialog).toHaveBeenCalled()
+        expect(item1.save).toHaveBeenCalled()
+        expect(item1.saveAs).toHaveBeenCalled()
+        expect(pane.isDestroyed()).toBe true
+
   describe "::destroy()", ->
     [container, pane1, pane2] = []
 
diff --git a/spec/text-editor-registry-spec.coffee b/spec/text-editor-registry-spec.coffee
index 04665bef2..80f29f897 100644
--- a/spec/text-editor-registry-spec.coffee
+++ b/spec/text-editor-registry-spec.coffee
@@ -10,6 +10,7 @@ describe "TextEditorRegistry", ->
     it "gets added to the list of registered editors", ->
       editor = {}
       registry.add(editor)
+      expect(editor.registered).toBe true
       expect(registry.editors.size).toBe 1
       expect(registry.editors.has(editor)).toBe(true)
 
@@ -19,6 +20,16 @@ describe "TextEditorRegistry", ->
       expect(registry.editors.size).toBe 1
       disposable.dispose()
       expect(registry.editors.size).toBe 0
+      expect(editor.registered).toBe false
+
+    it "can be removed", ->
+      editor = {}
+      registry.add(editor)
+      expect(registry.editors.size).toBe 1
+      success = registry.remove(editor)
+      expect(success).toBe true
+      expect(registry.editors.size).toBe 0
+      expect(editor.registered).toBe false
 
   describe "when the registry is observed", ->
     it "calls the callback for current and future editors until unsubscribed", ->
diff --git a/src/command-registry.coffee b/src/command-registry.coffee
index db2cf498d..955a1b540 100644
--- a/src/command-registry.coffee
+++ b/src/command-registry.coffee
@@ -244,11 +244,14 @@ class CommandRegistry
           (@selectorBasedListenersByCommandName[event.type] ? [])
             .filter (listener) -> currentTarget.webkitMatchesSelector(listener.selector)
             .sort (a, b) -> a.compare(b)
-        listeners = listeners.concat(selectorBasedListeners)
+        listeners = selectorBasedListeners.concat(listeners)
 
       matched = true if listeners.length > 0
 
-      for listener in listeners
+      # Call inline listeners first in reverse registration order,
+      # and selector-based listeners by specificity and reverse
+      # registration order.
+      for listener in listeners by -1
         break if immediatePropagationStopped
         listener.callback.call(currentTarget, dispatchedEvent)
 
@@ -271,8 +274,8 @@ class SelectorBasedListener
     @sequenceNumber = SequenceCount++
 
   compare: (other) ->
-    other.specificity - @specificity  or
-      other.sequenceNumber - @sequenceNumber
+    @specificity - other.specificity or
+      @sequenceNumber - other.sequenceNumber
 
 class InlineListener
   constructor: (@callback) ->
diff --git a/src/pane.coffee b/src/pane.coffee
index e8858a2b9..add6a365b 100644
--- a/src/pane.coffee
+++ b/src/pane.coffee
@@ -577,15 +577,23 @@ class Pane extends Model
     else
       return true
 
-    chosen = @applicationDelegate.confirm
-      message: "'#{item.getTitle?() ? uri}' has changes, do you want to save them?"
-      detailedMessage: "Your changes will be lost if you close this item without saving."
-      buttons: ["Save", "Cancel", "Don't Save"]
+    saveDialog = (saveButtonText, saveFn, message) =>
+      chosen = @applicationDelegate.confirm
+        message: message
+        detailedMessage: "Your changes will be lost if you close this item without saving."
+        buttons: [saveButtonText, "Cancel", "Don't save"]
+      switch chosen
+        when 0 then saveFn(item, saveError)
+        when 1 then false
+        when 2 then true
 
-    switch chosen
-      when 0 then @saveItem(item, -> true)
-      when 1 then false
-      when 2 then true
+    saveError = (error) =>
+      if error
+        saveDialog("Save as", @saveItemAs, "'#{item.getTitle?() ? uri}' could not be saved.\nError: #{@getMessageForErrorCode(error.code)}")
+      else
+        true
+
+    saveDialog("Save", @saveItem, "'#{item.getTitle?() ? uri}' has changes, do you want to save them?")
 
   # Public: Save the active item.
   saveActiveItem: (nextAction) ->
@@ -602,9 +610,11 @@ class Pane extends Model
   # Public: Save the given item.
   #
   # * `item` The item to save.
-  # * `nextAction` (optional) {Function} which will be called after the item is
-  #   successfully saved.
-  saveItem: (item, nextAction) ->
+  # * `nextAction` (optional) {Function} which will be called with no argument
+  #   after the item is successfully saved, or with the error if it failed.
+  #   The return value will be that of `nextAction` or `undefined` if it was not
+  #   provided
+  saveItem: (item, nextAction) =>
     if typeof item?.getURI is 'function'
       itemURI = item.getURI()
     else if typeof item?.getUri is 'function'
@@ -613,9 +623,12 @@ class Pane extends Model
     if itemURI?
       try
         item.save?()
+        nextAction?()
       catch error
-        @handleSaveError(error, item)
-      nextAction?()
+        if nextAction
+          nextAction(error)
+        else
+          @handleSaveError(error, item)
     else
       @saveItemAs(item, nextAction)
 
@@ -623,9 +636,11 @@ class Pane extends Model
   # path they select.
   #
   # * `item` The item to save.
-  # * `nextAction` (optional) {Function} which will be called after the item is
-  #   successfully saved.
-  saveItemAs: (item, nextAction) ->
+  # * `nextAction` (optional) {Function} which will be called with no argument
+  #   after the item is successfully saved, or with the error if it failed.
+  #   The return value will be that of `nextAction` or `undefined` if it was not
+  #   provided
+  saveItemAs: (item, nextAction) =>
     return unless item?.saveAs?
 
     saveOptions = item.getSaveDialogOptions?() ? {}
@@ -634,9 +649,12 @@ class Pane extends Model
     if newItemPath
       try
         item.saveAs(newItemPath)
+        nextAction?()
       catch error
-        @handleSaveError(error, item)
-      nextAction?()
+        if nextAction
+          nextAction(error)
+        else
+          @handleSaveError(error, item)
 
   # Public: Save all items.
   saveItems: ->
diff --git a/src/text-editor-registry.coffee b/src/text-editor-registry.coffee
index 8a17335d4..e31630fee 100644
--- a/src/text-editor-registry.coffee
+++ b/src/text-editor-registry.coffee
@@ -26,8 +26,20 @@ class TextEditorRegistry
   # editor is destroyed.
   add: (editor) ->
     @editors.add(editor)
+    editor.registered = true
+
     @emitter.emit 'did-add-editor', editor
-    new Disposable => @editors.delete(editor)
+    new Disposable => @remove(editor)
+
+  # Remove a `TextEditor`.
+  #
+  # * `editor` The editor to remove.
+  #
+  # Returns a {Boolean} indicating whether the editor was successfully removed.
+  remove: (editor) ->
+    removed = @editors.delete(editor)
+    editor.registered = false
+    removed
 
   # Invoke the given callback with all the current and future registered
   # `TextEditors`.
diff --git a/src/text-editor.coffee b/src/text-editor.coffee
index b778491d1..9607f3437 100644
--- a/src/text-editor.coffee
+++ b/src/text-editor.coffee
@@ -76,6 +76,7 @@ class TextEditor extends Model
   defaultCharWidth: null
   height: null
   width: null
+  registered: false
 
   Object.defineProperty @prototype, "element",
     get: -> @getElement()
@@ -202,7 +203,7 @@ class TextEditor extends Model
     tokenizedBuffer: tokenizedBufferState
     largeFileMode: @largeFileMode
     displayLayerId: @displayLayer.id
-    registered: atom.textEditors.editors.has this
+    registered: @registered
 
   subscribeToBuffer: ->
     @buffer.retain()
diff --git a/src/workspace.coffee b/src/workspace.coffee
index f75f00bc6..5e9de93dd 100644
--- a/src/workspace.coffee
+++ b/src/workspace.coffee
@@ -1092,7 +1092,7 @@ class Workspace extends Model
     if editor.getPath()
       checkoutHead = =>
         @project.repositoryForDirectory(new Directory(editor.getDirectoryPath()))
-          .then (repository) =>
+          .then (repository) ->
             repository?.async.checkoutHeadForEditor(editor)
 
       if @config.get('editor.confirmCheckoutHeadRevision')