diff --git a/spec/atom-environment-spec.js b/spec/atom-environment-spec.js
index 2a44b24042..4a896ec51d 100644
--- a/spec/atom-environment-spec.js
+++ b/spec/atom-environment-spec.js
@@ -764,7 +764,12 @@ describe('AtomEnvironment', () => {
           expect(atom.notifications.addWarning).toHaveBeenCalledWith(
             'Unable to open project folders',
             {
-              description: `The directories \`${nonExistent}\` and \`${existingFile}\` do not exist.`
+              description: `The directories \`${nonExistent}\` and \`${existingFile}\` do not exist.`,
+              dismissable: true,
+              buttons: [
+                { text: 'Remove all', onDidClick: jasmine.any(Function) },
+                { text: 'Skip for now', onDidClick: jasmine.any(Function) }
+              ]
             }
           );
         });
diff --git a/src/atom-environment.js b/src/atom-environment.js
index 510970615c..3cc535de51 100644
--- a/src/atom-environment.js
+++ b/src/atom-environment.js
@@ -1739,7 +1739,36 @@ or use Pane::saveItemAs for programmatic saving.`);
           '` do not exist.';
       }
 
-      this.notifications.addWarning(message, { description });
+      let notification;
+
+      let removeMissingPaths = async () => {
+        this.applicationDelegate.setProjectRoots(this.project.getPaths());
+
+        for (const missingFolder of missingFolders) {
+          const { pathToOpen } = missingFolder;
+
+          this.notifications.addWarning(`Removed ${pathToOpen}`);
+        }
+
+        if (notification) {
+          notification.dismiss();
+        }
+      };
+
+      let skipRemove = () => {
+        if (notification) {
+          notification.dismiss();
+        }
+      }
+
+      notification = this.notifications.addWarning(message, {
+        description,
+        dismissable: true,
+        buttons: [
+          { text: 'Remove all', onDidClick: removeMissingPaths },
+          { text: 'Skip for now', onDidClick: skipRemove }
+        ]
+      });
     }
 
     ipcRenderer.send('window-command', 'window:locations-opened');