diff --git a/core/devmode/src/main/java/io/quarkus/dev/RuntimeUpdatesProcessor.java b/core/devmode/src/main/java/io/quarkus/dev/RuntimeUpdatesProcessor.java
index 94bae4b47dd0c..5799fdb93a7af 100644
--- a/core/devmode/src/main/java/io/quarkus/dev/RuntimeUpdatesProcessor.java
+++ b/core/devmode/src/main/java/io/quarkus/dev/RuntimeUpdatesProcessor.java
@@ -334,6 +334,7 @@ private Set<String> checkForFileChange() {
                         });
                     }
                     for (Path i : seen) {
+                        moduleResources.remove(i);
                         if (!Files.isDirectory(i)) {
                             Files.delete(i);
                         }