diff --git a/centipede/runner.cc b/centipede/runner.cc
index 31950352..e5714a03 100644
--- a/centipede/runner.cc
+++ b/centipede/runner.cc
@@ -614,7 +614,9 @@ static void RunOneInput(const uint8_t *data, size_t size,
   int target_return_value = callbacks.Execute({data, size}) ? 0 : -1;
   state.stats.exec_time_usec = UsecSinceLast();
   CheckWatchdogLimits();
-  PostProcessCoverage(target_return_value);
+  if (centipede::state.input_start_time.exchange(0) != 0) {
+    PostProcessCoverage(target_return_value);
+  }
   state.stats.post_time_usec = UsecSinceLast();
   state.stats.peak_rss_mb = GetPeakRSSMb();
 }
@@ -1235,7 +1237,9 @@ extern "C" void CentipedePrepareProcessing() {
 
 extern "C" void CentipedeFinalizeProcessing() {
   centipede::CheckWatchdogLimits();
-  centipede::PostProcessCoverage(/*target_return_value=*/0);
+  if (centipede::state.input_start_time.exchange(0) != 0) {
+    centipede::PostProcessCoverage(/*target_return_value=*/0);
+  }
 }
 
 extern "C" size_t CentipedeGetExecutionResult(uint8_t *data, size_t capacity) {
diff --git a/centipede/runner_interface.h b/centipede/runner_interface.h
index 3227cc47..7fd75811 100644
--- a/centipede/runner_interface.h
+++ b/centipede/runner_interface.h
@@ -103,6 +103,9 @@ extern "C" void CentipedeEndExecutionBatch();
 extern "C" void CentipedePrepareProcessing();
 
 // Finalizes the processing of an input and stores the state internally.
+//
+// For tool integration, it can be called inside `RunnerCallbacks::Execute()` to
+// finalize the execution early before extra cleanups.
 extern "C" void CentipedeFinalizeProcessing();
 
 // Retrieves the execution results (including coverage information) after
diff --git a/fuzztest/internal/centipede_adaptor.cc b/fuzztest/internal/centipede_adaptor.cc
index 292e450c..c8a0e46a 100644
--- a/fuzztest/internal/centipede_adaptor.cc
+++ b/fuzztest/internal/centipede_adaptor.cc
@@ -479,7 +479,7 @@ class CentipedeFixtureDriver : public UntypedFixtureDriver {
     if (runtime_.skipping_requested()) {
       CentipedeSetExecutionResult(nullptr, 0);
     }
-    if (!runner_mode) CentipedeFinalizeProcessing();
+    CentipedeFinalizeProcessing();
   }
 
   void TearDownFuzzTest() override { orig_fixture_driver_->TearDownFuzzTest(); }