diff --git a/.gitignore b/.gitignore
index 79796cc..396b056 100644
--- a/.gitignore
+++ b/.gitignore
@@ -1,9 +1,9 @@
-build/*
+build/
+bin/
+
 .db
 .env
 .mcpregistry*
-**/bin
-cmd/registry/registry
 .DS_Store
 validate-examples
 validate-schemas
diff --git a/Makefile b/Makefile
index a8c11c2..0eb15b8 100644
--- a/Makefile
+++ b/Makefile
@@ -7,7 +7,7 @@ help: ## Show this help message
 
 # Build targets
 build: ## Build the registry application
-	go build ./cmd/registry
+	go build -o bin/registry ./cmd/registry
 
 publisher: ## Build the publisher tool
 	cd tools/publisher && ./build.sh
@@ -62,7 +62,7 @@ dev-local: ## Run registry locally (requires MongoDB)
 
 # Cleanup
 clean: ## Clean build artifacts and coverage files
-	rm -f registry
+	rm -rf bin
 	rm -f coverage.out coverage.html
 	cd tools/publisher && rm -f publisher
 
diff --git a/registry b/registry
deleted file mode 100755
index 04e5ced..0000000
Binary files a/registry and /dev/null differ