diff --git a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleMovedJarsPostProcessor.java b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleMovedJarsPostProcessor.java
index a747afbb79df..5afb539814a1 100644
--- a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleMovedJarsPostProcessor.java
+++ b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleMovedJarsPostProcessor.java
@@ -69,12 +69,18 @@ public class GradleMovedJarsPostProcessor implements GradleProjectStructureChang
   }
 
   @Override
-  public void processChanges(@NotNull final Collection<GradleProjectStructureChange> changes, @NotNull final Project project) {
+  public void processChanges(@NotNull final Collection<GradleProjectStructureChange> changes,
+                             @NotNull final Project project,
+                             boolean onIdeProjectStructureChange) {
+    if (onIdeProjectStructureChange) {
+      // Do nothing as project models modification implied by project model change event are prohibited (see IDEA-100625).
+      return;
+    }
     final Collection<MergeInfo> toMerge = buildMergeData(changes, ServiceManager.getService(project, GradleProjectStructureContext.class));
     if (toMerge == null) {
       return;
     }
-    
+
     Runnable mergeTask = new Runnable() {
       @Override
       public void run() {
diff --git a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleOutdatedLibraryVersionPostProcessor.java b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleOutdatedLibraryVersionPostProcessor.java
index 595b3e0da9af..deb2b4ba9b5b 100644
--- a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleOutdatedLibraryVersionPostProcessor.java
+++ b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleOutdatedLibraryVersionPostProcessor.java
@@ -59,7 +59,10 @@ public class GradleOutdatedLibraryVersionPostProcessor implements GradleProjectS
   private static final boolean SKIP = SystemProperties.getBooleanProperty("gradle.skip.outdated.processing", false);
 
   @Override
-  public void processChanges(@NotNull Collection<GradleProjectStructureChange> changes, @NotNull Project project) {
+  public void processChanges(@NotNull Collection<GradleProjectStructureChange> changes,
+                             @NotNull Project project,
+                             boolean onIdeProjectStructureChange)
+  {
     if (SKIP) {
       return;
     }
diff --git a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesDetector.java b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesDetector.java
index 7cbac6f95012..c212bbb1ccff 100644
--- a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesDetector.java
+++ b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesDetector.java
@@ -108,7 +108,7 @@ public class GradleProjectStructureChangesDetector implements GradleProjectStruc
     GradleProject project = myChangesModel.getGradleProject();
     if (project != null) {
       myNewChangesDetected.set(false);
-      myChangesModel.update(project);
+      myChangesModel.update(project, true);
       if (!myNewChangesDetected.get()) {
         return;
       }
diff --git a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesModel.java b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesModel.java
index d9764a245edb..178ade4d1801 100644
--- a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesModel.java
+++ b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesModel.java
@@ -56,6 +56,10 @@ public class GradleProjectStructureChangesModel {
     myPostProcessors.add(changedLibraryVersionPostProcessor);
   }
 
+  public void update(@NotNull GradleProject gradleProject) {
+    update(gradleProject, false);
+  }
+
   /**
    * Asks the model to update its state according to the given state of the target gradle project.
    * <p/>
@@ -72,11 +76,13 @@ public class GradleProjectStructureChangesModel {
    * <b>Note:</b> it's very important that the listeners are notified <b>after</b> the actual state change, i.e. {@link #getChanges()}
    * during the update returns up-to-date data.
    *
-   * @param gradleProject  gradle project to sync with
+   * @param gradleProject                gradle project to sync with
+   * @param onIdeProjectStructureChange  a flag which identifies if current update is triggered by ide project structure
+   *                                     change (an alternative is a manual project structure changes refresh implied by a user)
    */
-  public void update(@NotNull GradleProject gradleProject) {
+  public void update(@NotNull GradleProject gradleProject, boolean onIdeProjectStructureChange) {
     myGradleProject.set(gradleProject);
-    final GradleChangesCalculationContext context = getCurrentChangesContext(gradleProject);
+    final GradleChangesCalculationContext context = getCurrentChangesContext(gradleProject, onIdeProjectStructureChange);
     if (!context.hasNewChanges()) {
       return;
     }
@@ -112,12 +118,14 @@ public class GradleProjectStructureChangesModel {
   }
 
   @NotNull
-  public GradleChangesCalculationContext getCurrentChangesContext(@NotNull GradleProject gradleProject) {
+  public GradleChangesCalculationContext getCurrentChangesContext(@NotNull GradleProject gradleProject,
+                                                                  boolean onIdeProjectStructureChange)
+  {
     GradleChangesCalculationContext context
       = new GradleChangesCalculationContext(myChanges.get(), myPlatformFacade, myLibraryPathTypeMapper);
     myChangesCalculator.calculate(gradleProject, myProject, context);
     for (GradleProjectStructureChangesPostProcessor processor : myPostProcessors) {
-      processor.processChanges(context.getCurrentChanges(), myProject);
+      processor.processChanges(context.getCurrentChanges(), myProject, onIdeProjectStructureChange);
     }
     return context;
   }
diff --git a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesPostProcessor.java b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesPostProcessor.java
index 914aac966adc..eb5d40de5bba 100644
--- a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesPostProcessor.java
+++ b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureChangesPostProcessor.java
@@ -39,8 +39,12 @@ public interface GradleProjectStructureChangesPostProcessor {
    * <b>Note:</b> this callback is assumed to be called from EDT, in order to allow synchronous processing such as
    * given changes collection's modification is immediately visible to the calling code.
    * 
-   * @param changes  current changes which might be adjusted
-   * @param project  current intellij project
+   * @param changes                      current changes which might be adjusted
+   * @param project                      current intellij project
+   * @param onIdeProjectStructureChange  a flag which identifies if current update is triggered by ide project structure
+   *                                     change (an alternative is a manual project structure changes refresh implied by a user)
    */
-  void processChanges(@NotNull Collection<GradleProjectStructureChange> changes, @NotNull Project project);
+  void processChanges(@NotNull Collection<GradleProjectStructureChange> changes,
+                      @NotNull Project project,
+                      boolean onIdeProjectStructureChange);
 }
diff --git a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureTreeModel.java b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureTreeModel.java
index 6df9866c7794..2a2b3a5b990d 100644
--- a/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureTreeModel.java
+++ b/plugins/gradle/src/org/jetbrains/plugins/gradle/sync/GradleProjectStructureTreeModel.java
@@ -224,7 +224,7 @@ public class GradleProjectStructureTreeModel extends DefaultTreeModel {
 
     GradleProject project = myChangesModel.getGradleProject();
     if (project != null) {
-      GradleChangesCalculationContext context = myChangesModel.getCurrentChangesContext(project);
+      GradleChangesCalculationContext context = myChangesModel.getCurrentChangesContext(project, false);
       processChanges(Collections.<GradleProjectStructureChange>emptyList(), context.getCurrentChanges());
       filterNodes(root);
     }