diff --git a/libraries/tools/kotlin-gradle-plugin-integration-tests/src/test/kotlin/org/jetbrains/kotlin/gradle/NewMultiplatformIT.kt b/libraries/tools/kotlin-gradle-plugin-integration-tests/src/test/kotlin/org/jetbrains/kotlin/gradle/NewMultiplatformIT.kt
index 217218029de..58a3817bf49 100644
--- a/libraries/tools/kotlin-gradle-plugin-integration-tests/src/test/kotlin/org/jetbrains/kotlin/gradle/NewMultiplatformIT.kt
+++ b/libraries/tools/kotlin-gradle-plugin-integration-tests/src/test/kotlin/org/jetbrains/kotlin/gradle/NewMultiplatformIT.kt
@@ -29,7 +29,6 @@ import org.jetbrains.kotlin.konan.target.HostManager
 import org.jetbrains.kotlin.library.KLIB_PROPERTY_SHORT_NAME
 import org.jetbrains.kotlin.library.KLIB_PROPERTY_UNIQUE_NAME
 import org.junit.Assert
-import org.junit.Ignore
 import org.junit.Test
 import java.util.*
 import java.util.jar.JarFile
@@ -1624,6 +1623,25 @@ class NewMultiplatformIT : BaseGradleIT() {
         }
     }
 
+    // https://youtrack.jetbrains.com/issue/KT-48436
+    @Test
+    fun testUnusedSourceSetsReportAndroid() = with(Project("new-mpp-android", gradleVersion)) {
+        setupWorkingDir()
+
+        build(
+            "assembleDebug",
+            // https://issuetracker.google.com/issues/152187160
+            options = defaultBuildOptions().copy(androidGradlePluginVersion = AGPVersion.v4_2_0)
+        ) {
+            assertSuccessful()
+            assertNotContains(
+                UnusedSourceSetsChecker.WARNING_PREFIX_ONE,
+                UnusedSourceSetsChecker.WARNING_PREFIX_MANY,
+                UnusedSourceSetsChecker.WARNING_INTRO
+            )
+        }
+    }
+
     @Test
     fun testIncrementalCompilation() = with(Project("new-mpp-jvm-js-ic", gradleVersion)) {
         build("build") {
diff --git a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/gradleUtils.kt b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/gradleUtils.kt
index f96a960f604..c8af17ec882 100644
--- a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/gradleUtils.kt
+++ b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/gradleUtils.kt
@@ -20,6 +20,7 @@ package org.jetbrains.kotlin.gradle.plugin
 
 import org.gradle.api.internal.HasConvention
 import org.gradle.api.plugins.ExtensionAware
+import org.gradle.api.plugins.ExtraPropertiesExtension
 
 @Deprecated("Conventions are deprecated in Gradle")
 internal inline fun <reified T : Any> Any.addConvention(name: String, plugin: T) {
@@ -42,3 +43,6 @@ internal inline fun <reified T : Any> Any.addExtension(name: String, extension:
 
 internal inline fun <reified T : Any> Any.getExtension(name: String): T? =
     (this as ExtensionAware).extensions.getByName(name) as T?
+
+inline val Any.extraProperties: ExtraPropertiesExtension
+    get() = (this as ExtensionAware).extensions.extraProperties
diff --git a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/mpp/UnusedSourceSetsChecker.kt b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/mpp/UnusedSourceSetsChecker.kt
index 15a2cb5c1e3..9162e97e5f9 100644
--- a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/mpp/UnusedSourceSetsChecker.kt
+++ b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/mpp/UnusedSourceSetsChecker.kt
@@ -8,6 +8,8 @@ package org.jetbrains.kotlin.gradle.plugin.mpp
 import org.gradle.api.Project
 import org.jetbrains.kotlin.gradle.dsl.kotlinExtension
 import org.jetbrains.kotlin.gradle.plugin.KotlinSourceSet
+import org.jetbrains.kotlin.gradle.plugin.extraProperties
+import org.jetbrains.kotlin.gradle.plugin.whenEvaluated
 
 object UnusedSourceSetsChecker {
     const val WARNING_PREFIX_ONE =
@@ -35,11 +37,14 @@ object UnusedSourceSetsChecker {
     }
 
     fun checkSourceSets(project: Project) {
-        // TODO once Android compilations are configured eagerly, move this to afterEvaluate { ... } instead of taskGraph.whenReady { ... }
-        project.gradle.taskGraph.whenReady { _ ->
+        project.whenEvaluated {
             val compilationsBySourceSet = CompilationSourceSetUtil.compilationsBySourceSets(project)
             val unusedSourceSets = project.kotlinExtension.sourceSets.filter {
-                compilationsBySourceSet[it]?.isEmpty() ?: true
+                // Ignoring Android source sets
+                val isAndroidSourceSet = it.extraProperties.has(IS_ANDROID_SOURCE_SET) &&
+                        (it.extraProperties[IS_ANDROID_SOURCE_SET] as Boolean)
+
+                !isAndroidSourceSet && compilationsBySourceSet[it]?.isEmpty() ?: true
             }
             if (unusedSourceSets.isNotEmpty()) {
                 reportUnusedSourceSets(project, unusedSourceSets.toSet())
diff --git a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/mpp/syncKotlinAndAndroidSourceSets.kt b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/mpp/syncKotlinAndAndroidSourceSets.kt
index 6781d2ffda7..3e3f59ba643 100644
--- a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/mpp/syncKotlinAndAndroidSourceSets.kt
+++ b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/plugin/mpp/syncKotlinAndAndroidSourceSets.kt
@@ -16,13 +16,22 @@ import org.jetbrains.kotlin.gradle.plugin.AbstractAndroidProjectHandler.Companio
 import org.jetbrains.kotlin.gradle.plugin.addConvention
 import org.jetbrains.kotlin.gradle.plugin.sources.KotlinSourceSetFactory.Companion.defaultSourceFolder
 
+internal const val IS_ANDROID_SOURCE_SET = "android-source-set"
+
 internal fun syncKotlinAndAndroidSourceSets(target: KotlinAndroidTarget) {
     val project = target.project
     val android = project.extensions.getByName("android") as BaseExtension
+    val kotlinExtension = project.kotlinExtension
 
+    val createdKotlinSourceSets = mutableSetOf<String>()
     android.sourceSets.all { androidSourceSet ->
         val kotlinSourceSetName = kotlinSourceSetNameForAndroidSourceSet(target, androidSourceSet.name)
-        val kotlinSourceSet = project.kotlinExtension.sourceSets.maybeCreate(kotlinSourceSetName)
+        createdKotlinSourceSets.add(kotlinSourceSetName)
+        val kotlinSourceSet = kotlinExtension.sourceSets.maybeCreate(kotlinSourceSetName)
+
+        // Marking KotlinSource set is created for Android compilation to ignore it in UnusedSourceSetChecker
+        kotlinSourceSet.extraProperties.set(IS_ANDROID_SOURCE_SET, true)
+
         androidSourceSet.addKotlinSources(kotlinSourceSet)
 
         createDefaultDependsOnEdges(target, kotlinSourceSet, androidSourceSet)