diff --git a/runners/gradle-plugin/src/main/kotlin/org/jetbrains/dokka/gradle/kotlin/kotlinClasspathUtils.kt b/runners/gradle-plugin/src/main/kotlin/org/jetbrains/dokka/gradle/kotlin/kotlinClasspathUtils.kt
index 1d0fa4a38d..b934d20654 100644
--- a/runners/gradle-plugin/src/main/kotlin/org/jetbrains/dokka/gradle/kotlin/kotlinClasspathUtils.kt
+++ b/runners/gradle-plugin/src/main/kotlin/org/jetbrains/dokka/gradle/kotlin/kotlinClasspathUtils.kt
@@ -6,12 +6,25 @@ import org.jetbrains.dokka.gradle.isAndroidTarget
 import org.jetbrains.dokka.utilities.cast
 import org.jetbrains.kotlin.gradle.plugin.KotlinSourceSet
 import org.jetbrains.kotlin.gradle.plugin.mpp.KotlinNativeCompilation
+import org.jetbrains.kotlin.gradle.plugin.mpp.KotlinCommonCompilation
 import org.jetbrains.kotlin.gradle.tasks.KotlinCompile
 
+val Project.isHMPPEnabled
+    // [KotlinCommonCompilation.isKlibCompilation] is internal, so we use this
+    get() = (this.findProperty("kotlin.mpp.enableGranularSourceSetsMetadata") as? String)?.toBoolean() ?: false
+
 internal fun Project.classpathOf(sourceSet: KotlinSourceSet): FileCollection {
     val compilations = compilationsOf(sourceSet)
     return if (compilations.isNotEmpty()) {
         compilations
+            /**
+             * If the project has enabled Compatibility Metadata Variant (produces legacy variant),
+             * we don't touch it due to some dependant library
+             * might be published without Compatibility Metadata Variant.
+             * Dokka needs only HMPP variant
+             * Ignore [org.jetbrains.kotlin.gradle.plugin.mpp.KotlinCommonCompilation]  for `commonMain`  sourceSet with name `main`
+             */
+            .filterNot { compilation -> isHMPPEnabled && compilation is KotlinCommonCompilation && compilation.name == "main" }
             .map { compilation -> compileClasspathOf(compilation) }
             .reduce { acc, fileCollection -> acc + fileCollection }
     } else {