diff --git a/libraries/tools/kotlin-gradle-plugin/src/main/kotlin/org/jetbrains/kotlin/gradle/plugin/sources/DefaultKotlinSourceSet.kt b/libraries/tools/kotlin-gradle-plugin/src/main/kotlin/org/jetbrains/kotlin/gradle/plugin/sources/DefaultKotlinSourceSet.kt
index 3c4b1a7a9bd..859aa481fbf 100644
--- a/libraries/tools/kotlin-gradle-plugin/src/main/kotlin/org/jetbrains/kotlin/gradle/plugin/sources/DefaultKotlinSourceSet.kt
+++ b/libraries/tools/kotlin-gradle-plugin/src/main/kotlin/org/jetbrains/kotlin/gradle/plugin/sources/DefaultKotlinSourceSet.kt
@@ -186,7 +186,7 @@ class DefaultKotlinSourceSet(
                     val filesBySourceSet = resolution.getMetadataFilesBySourceSet(
                         baseDir,
                         doProcessFiles = true
-                    )
+                    ).filter { it.value.any { it.exists() } }
 
                     MetadataDependencyTransformation(
                         group, name, projectPath,