Only migrate config when not including deprecated APIs

spec/package-manager-spec.coffee

@@ -879,6 +879,16 @@ describe "PackageManager", ->
         expect(fs.isSymbolicLinkSync(autocompletePlusPath)).toBe true
 
   describe "when the deprecated sublime-tabs package is installed", ->
+    grim = require 'grim'
+    includeDeprecatedAPIs = null
+
+    beforeEach ->
+      {includeDeprecatedAPIs} = grim
+      grim.includeDeprecatedAPIs = false
+
+    afterEach ->
+      grim.includeDeprecatedAPIs = includeDeprecatedAPIs
+
     it "enables the tree-view and tabs package", ->
       atom.config.pushAtKeyPath('core.disabledPackages', 'tree-view')
       atom.config.pushAtKeyPath('core.disabledPackages', 'tabs')

src/package-manager.coffee

@@ -451,6 +451,7 @@ class PackageManager
 
   # TODO: remove this after a few versions
   migrateSublimeTabsSettings: (packagePaths) ->
+    return if Grim.includeDeprecatedAPIs
     for packagePath in packagePaths when path.basename(packagePath) is 'sublime-tabs'
       atom.config.removeAtKeyPath('core.disabledPackages', 'tree-view')
       atom.config.removeAtKeyPath('core.disabledPackages', 'tabs')