diff --git a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/ArtifactOutputToSourceMapping.java b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/ArtifactOutputToSourceMapping.java
index 067a383acf40..6c172251f0e1 100644
--- a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/ArtifactOutputToSourceMapping.java
+++ b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/ArtifactOutputToSourceMapping.java
@@ -15,14 +15,18 @@
  */
 package org.jetbrains.jps.incremental.artifacts;
 
+import com.intellij.openapi.util.io.FileUtil;
 import com.intellij.util.SmartList;
 import com.intellij.util.io.DataExternalizer;
 import com.intellij.util.io.IOUtil;
 import org.jetbrains.annotations.NonNls;
+import org.jetbrains.annotations.Nullable;
 import org.jetbrains.jps.incremental.storage.AbstractStateStorage;
 import org.jetbrains.jps.incremental.storage.PathStringDescriptor;
 
 import java.io.*;
+import java.util.ArrayList;
+import java.util.Collections;
 import java.util.List;
 
 /**
@@ -35,6 +39,40 @@ public class ArtifactOutputToSourceMapping extends AbstractStateStorage<String,
     super(storePath, new PathStringDescriptor(), new SourcePathListExternalizer());
   }
 
+  @Override
+  public void update(String path, @Nullable List<SourcePathAndRootIndex> state) throws IOException {
+    super.update(FileUtil.toSystemIndependentName(path), normalize(state));
+  }
+
+  @Override
+  public void appendData(String path, List<SourcePathAndRootIndex> data) throws IOException {
+    super.appendData(FileUtil.toSystemIndependentName(path), normalize(data));
+  }
+
+  private static List<SourcePathAndRootIndex> normalize(List<SourcePathAndRootIndex> data) {
+    if (data.isEmpty()) return Collections.emptyList();
+    List<SourcePathAndRootIndex> normalized = new ArrayList<SourcePathAndRootIndex>(data.size());
+    for (SourcePathAndRootIndex pair : data) {
+      normalized.add(new SourcePathAndRootIndex(FileUtil.toSystemIndependentName(pair.getPath()), pair.getRootIndex()));
+    }
+    return normalized;
+  }
+
+  public void appendData(String outputPath, int rootIndex, String sourcePath) throws IOException {
+    super.appendData(outputPath, Collections.singletonList(new SourcePathAndRootIndex(FileUtil.toSystemIndependentName(sourcePath), rootIndex)));
+  }
+
+  @Override
+  public void remove(String path) throws IOException {
+    super.remove(FileUtil.toSystemIndependentName(path));
+  }
+
+  @Nullable
+  @Override
+  public List<SourcePathAndRootIndex> getState(String path) throws IOException {
+    return super.getState(FileUtil.toSystemIndependentName(path));
+  }
+
   public static class SourcePathAndRootIndex {
     private final String myPath;
     private final int myRootIndex;
diff --git a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/IncArtifactBuilder.java b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/IncArtifactBuilder.java
index 2d002c98f441..6dc56ef587c6 100644
--- a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/IncArtifactBuilder.java
+++ b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/IncArtifactBuilder.java
@@ -221,7 +221,7 @@ public class IncArtifactBuilder extends TargetBuilder<ArtifactRootDescriptor, Ar
 
       boolean deleted = deletedPaths.contains(filePath);
       if (!deleted) {
-        deleted = FileUtil.delete(new File(FileUtil.toSystemDependentName(filePath)));
+        deleted = FileUtil.delete(new File(filePath));
       }
 
       if (deleted) {
diff --git a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/impl/JarsBuilder.java b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/impl/JarsBuilder.java
index ed2964efb5cd..ba43cc7ea05e 100644
--- a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/impl/JarsBuilder.java
+++ b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/impl/JarsBuilder.java
@@ -169,8 +169,7 @@ public class JarsBuilder {
           else {
             final String filePath = FileUtil.toSystemIndependentName(descriptor.getRootFile().getAbsolutePath());
             packedFilePaths.add(filePath);
-            myOutSrcMapping.appendData(targetJarPath, Collections
-              .singletonList(new ArtifactOutputToSourceMapping.SourcePathAndRootIndex(filePath, rootIndex)));
+            myOutSrcMapping.appendData(targetJarPath, rootIndex, filePath);
             extractFileAndAddToJar(jarOutputStream, (JarBasedArtifactRootDescriptor)descriptor, relativePath, writtenPaths);
           }
         }
@@ -350,7 +349,7 @@ public class JarsBuilder {
 
     final boolean added = ZipUtil.addFileToZip(jarOutputStream, file, relativePath, writtenItemRelativePaths, null);
     if (rootIndex != -1) {
-      myOutSrcMapping.appendData(targetJarPath, Collections.singletonList(new ArtifactOutputToSourceMapping.SourcePathAndRootIndex(filePath, rootIndex)));
+      myOutSrcMapping.appendData(targetJarPath, rootIndex, filePath);
       if (added) {
         packedFilePaths.add(filePath);
       }
diff --git a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/instructions/FileBasedArtifactRootDescriptor.java b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/instructions/FileBasedArtifactRootDescriptor.java
index 8ddf30bad6e7..71eb66d1155b 100644
--- a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/instructions/FileBasedArtifactRootDescriptor.java
+++ b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/instructions/FileBasedArtifactRootDescriptor.java
@@ -84,6 +84,6 @@ public class FileBasedArtifactRootDescriptor extends ArtifactRootDescriptor {
     else if (LOG.isDebugEnabled()) {
       LOG.debug("Target path " + targetPath + " is already registered so " + filePath + " won't be copied");
     }
-    outSrcMapping.appendData(targetPath, Collections.singletonList(new ArtifactOutputToSourceMapping.SourcePathAndRootIndex(filePath, rootIndex)));
+    outSrcMapping.appendData(targetPath, rootIndex, filePath);
   }
 }
diff --git a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/instructions/JarBasedArtifactRootDescriptor.java b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/instructions/JarBasedArtifactRootDescriptor.java
index f93b8b55d88c..8485d28901c2 100644
--- a/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/instructions/JarBasedArtifactRootDescriptor.java
+++ b/jps/jps-builders/src/org/jetbrains/jps/incremental/artifacts/instructions/JarBasedArtifactRootDescriptor.java
@@ -91,7 +91,7 @@ public class JarBasedArtifactRootDescriptor extends ArtifactRootDescriptor {
     processEntries(new EntryProcessor() {
       @Override
       public void process(@Nullable InputStream inputStream, @NotNull String relativePath, ZipEntry entry) throws IOException {
-        final String fullOutputPath = FileUtil.toSystemIndependentName(JpsArtifactPathUtil.appendToPath(outputPath, relativePath));
+        final String fullOutputPath = JpsArtifactPathUtil.appendToPath(outputPath, relativePath);
         final File outputFile = new File(fullOutputPath);
 
         FileUtil.createParentDirs(outputFile);
@@ -111,7 +111,7 @@ public class JarBasedArtifactRootDescriptor extends ArtifactRootDescriptor {
             }
             outputConsumer.registerOutputFile(outputFile, Collections.singletonList(filePath));
           }
-          outSrcMapping.appendData(fullOutputPath, Collections.singletonList(new ArtifactOutputToSourceMapping.SourcePathAndRootIndex(filePath, rootIndex)));
+          outSrcMapping.appendData(fullOutputPath, rootIndex, filePath);
         }
       }
     });