diff --git a/libraries/tools/kotlin-gradle-plugin-integration-tests/src/test/kotlin/org/jetbrains/kotlin/gradle/native/GeneralNativeIT.kt b/libraries/tools/kotlin-gradle-plugin-integration-tests/src/test/kotlin/org/jetbrains/kotlin/gradle/native/GeneralNativeIT.kt
index ea3760a8506..97f4355763e 100644
--- a/libraries/tools/kotlin-gradle-plugin-integration-tests/src/test/kotlin/org/jetbrains/kotlin/gradle/native/GeneralNativeIT.kt
+++ b/libraries/tools/kotlin-gradle-plugin-integration-tests/src/test/kotlin/org/jetbrains/kotlin/gradle/native/GeneralNativeIT.kt
@@ -25,9 +25,7 @@ import org.jetbrains.kotlin.konan.target.KonanTarget
 import org.jetbrains.kotlin.konan.target.presetName
 import org.junit.Assume
 import org.junit.Ignore
-import org.junit.Rule
 import org.junit.Test
-import org.junit.rules.ErrorCollector
 import java.io.File
 import java.nio.file.Files
 import java.util.*
@@ -1179,6 +1177,29 @@ class GeneralNativeIT : BaseGradleIT() {
         }
     }
 
+    // KT-54439
+    @Test
+    fun testLanguageSettingsSyncToNativeTasks() = with(transformNativeTestProjectWithPluginDsl("native-kotlin-options")) {
+        gradleBuildScript().modify {
+            """
+            |${it.substringBefore("kotlin {")}
+            |
+            |kotlin {
+            |    ${HostManager.host.presetName}("host") {
+            |        compilations.named("main").configure { 
+            |            kotlinOptions.freeCompilerArgs += ["-Xverbose-phases=Linker"] 
+            |        }
+            |    }
+            |}
+            """.trimMargin()
+        }
+
+        build("assemble") {
+            assertSuccessful()
+            assertContains("-Xverbose-phases=Linker")
+        }
+    }
+
     companion object {
         fun List<String>.containsSequentially(vararg elements: String): Boolean {
             check(elements.isNotEmpty())
diff --git a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/KotlinNativeCompilation.kt b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/KotlinNativeCompilation.kt
index 7a847827780..683a9a1a4ba 100644
--- a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/KotlinNativeCompilation.kt
+++ b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/KotlinNativeCompilation.kt
@@ -11,10 +11,12 @@ import org.gradle.api.NamedDomainObjectContainer
 import org.gradle.api.Project
 import org.gradle.api.tasks.TaskProvider
 import org.jetbrains.kotlin.gradle.dsl.KotlinCommonOptions
+import org.jetbrains.kotlin.gradle.plugin.HasCompilerOptions
 import org.jetbrains.kotlin.gradle.plugin.KotlinCompilationWithResources
 import org.jetbrains.kotlin.gradle.plugin.PropertiesProvider
 import org.jetbrains.kotlin.gradle.plugin.mpp.pm20.KotlinNativeCompilationData
 import org.jetbrains.kotlin.gradle.plugin.mpp.pm20.KotlinNativeFragmentMetadataCompilationData
+import org.jetbrains.kotlin.gradle.targets.native.NativeCompilerOptions
 import org.jetbrains.kotlin.gradle.tasks.KotlinNativeCompile
 import org.jetbrains.kotlin.gradle.utils.lowerCamelCaseName
 import org.jetbrains.kotlin.konan.target.KonanTarget
@@ -77,6 +79,9 @@ abstract class KotlinNativeCompilation @Inject constructor(
     override val target: KotlinNativeTarget
         get() = super.target as KotlinNativeTarget
 
+    override val compilerOptions: NativeCompilerOptions
+        get() = super.compilerOptions as NativeCompilerOptions
+
     // Interop DSL.
     val cinterops = project.container(DefaultCInteropSettings::class.java) { cinteropName ->
         project.objects.newInstance(DefaultCInteropSettings::class.java, cinteropName, this)
diff --git a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/KotlinNativeTargetConfigurator.kt b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/KotlinNativeTargetConfigurator.kt
index 140dcaa5707..85499d6e0e4 100644
--- a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/KotlinNativeTargetConfigurator.kt
+++ b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/KotlinNativeTargetConfigurator.kt
@@ -324,6 +324,11 @@ open class KotlinNativeTargetConfigurator<T : KotlinNativeTarget> : AbstractKotl
                 project.syncLanguageSettingsToLinkTask(binary)
             }
         }
+        project.runOnceAfterEvaluated("Sync native compilation language settings to compiler options") {
+            target.compilations.all { compilation ->
+                compilation.compilerOptions.syncLanguageSettings()
+            }
+        }
 
         target.binaries.withType(Executable::class.java).all {
             project.createRunTask(it)
diff --git a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/NativeCompilerOptions.kt b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/NativeCompilerOptions.kt
index 6302c25f941..e2654716c5c 100644
--- a/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/NativeCompilerOptions.kt
+++ b/libraries/tools/kotlin-gradle-plugin/src/common/kotlin/org/jetbrains/kotlin/gradle/targets/native/NativeCompilerOptions.kt
@@ -9,20 +9,20 @@ import org.gradle.api.Project
 import org.jetbrains.kotlin.gradle.dsl.KotlinCommonCompilerOptions
 import org.jetbrains.kotlin.gradle.dsl.KotlinCommonCompilerOptionsDefault
 import org.jetbrains.kotlin.gradle.plugin.HasCompilerOptions
-import org.jetbrains.kotlin.gradle.plugin.runOnceAfterEvaluated
 import org.jetbrains.kotlin.gradle.plugin.sources.applyLanguageSettingsToCompilerOptions
 import org.jetbrains.kotlin.project.model.LanguageSettings
 
-internal class NativeCompilerOptions(
+class NativeCompilerOptions(
     project: Project,
-    nativeLanguageSettings: LanguageSettings
+    private val nativeLanguageSettings: LanguageSettings
 ) : HasCompilerOptions<KotlinCommonCompilerOptions> {
     override val options: KotlinCommonCompilerOptions = project.objects
         .newInstance(KotlinCommonCompilerOptionsDefault::class.java)
         .apply {
             useK2.finalizeValue()
-            project.runOnceAfterEvaluated("apply Kotlin native properties from language settings") {
-                applyLanguageSettingsToCompilerOptions(nativeLanguageSettings, this)
-            }
         }
+
+    fun syncLanguageSettings() {
+        applyLanguageSettingsToCompilerOptions(nativeLanguageSettings, options)
+    }
 }