diff --git a/platform/platform-impl/src/com/intellij/ide/startup/impl/StartupManagerImpl.java b/platform/platform-impl/src/com/intellij/ide/startup/impl/StartupManagerImpl.java
index ed23ea542d60..0faf3d97446d 100644
--- a/platform/platform-impl/src/com/intellij/ide/startup/impl/StartupManagerImpl.java
+++ b/platform/platform-impl/src/com/intellij/ide/startup/impl/StartupManagerImpl.java
@@ -15,6 +15,7 @@
  */
 package com.intellij.ide.startup.impl;
 
+import com.intellij.ide.impl.ProjectUtil;
 import com.intellij.ide.startup.StartupManagerEx;
 import com.intellij.notification.Notification;
 import com.intellij.notification.NotificationListener;
@@ -43,6 +44,7 @@ import com.intellij.openapi.vfs.impl.local.FileWatcher;
 import com.intellij.openapi.vfs.impl.local.LocalFileSystemImpl;
 import com.intellij.openapi.vfs.newvfs.NewVirtualFile;
 import com.intellij.openapi.vfs.newvfs.RefreshQueue;
+import com.intellij.util.PathUtil;
 import com.intellij.util.SmartList;
 import com.intellij.util.io.storage.HeavyProcessLatch;
 import com.intellij.util.messages.MessageBusConnection;
@@ -256,6 +258,9 @@ public class StartupManagerImpl extends StartupManagerEx {
       if (path == null || FileUtil.isAncestor(PathManager.getConfigPath(), path, true)) {
         return;
       }
+      if (ProjectUtil.isDirectoryBased(myProject)) {
+        path = PathUtil.getParentPath(path);
+      }
 
       boolean actual = FileUtil.isFileSystemCaseSensitive(path);
       LOG.info(path + " case-sensitivity: " + actual);