diff --git a/src/Mutagen.ts b/src/Mutagen.ts
index b7fcf20..f7fac6b 100644
--- a/src/Mutagen.ts
+++ b/src/Mutagen.ts
@@ -49,6 +49,17 @@ export class Mutagen {
         return true;
     }
 
+    isRunning(mutagenConfigFile: string): boolean {
+        try {
+            // Check if the mutagen project is running
+            process.execSync(`mutagen project list -f ${mutagenConfigFile}`);
+        }
+        catch (e) {
+            return false;
+        }
+        return true;
+    }
+
     start(mutagenConfigFile: string) {
         try {
             this.logger.verbose(`starting mutagen`);
@@ -59,12 +70,15 @@ export class Mutagen {
         }
     }
     stop(mutagenConfigFile: string) {
-        try {
-            this.logger.verbose(`stopping mutagen`);
-            const stdout = process.execSync(`mutagen project terminate -f ${mutagenConfigFile}`);
-            this.logger.verbose(`stopped mutagen: ${stdout}`);
-        } catch (e) {
-            throw new MutagenProcessError(e);
+        // If the project is running, stop it.
+        if (this.isRunning(mutagenConfigFile)) {
+            try {
+                this.logger.verbose(`stopping mutagen`);
+                const stdout = process.execSync(`mutagen project terminate -f ${mutagenConfigFile}`);
+                this.logger.verbose(`stopped mutagen: ${stdout}`);
+            } catch (e) {
+                throw new MutagenProcessError(e);
+            }
         }
     }
 }
diff --git a/src/MutagenConfigManipulator.ts b/src/MutagenConfigManipulator.ts
index 5dcbec5..fb5e45c 100644
--- a/src/MutagenConfigManipulator.ts
+++ b/src/MutagenConfigManipulator.ts
@@ -111,4 +111,4 @@ export class MutagenConfigManipulator {
             throw new MutagenConfigWriteError(e);
         }
     }
-}
\ No newline at end of file
+}
diff --git a/src/app.ts b/src/app.ts
index a119284..96d5279 100644
--- a/src/app.ts
+++ b/src/app.ts
@@ -65,7 +65,11 @@ export = (app: App) => {
             logger.info('stopped mutagen');
         }
         catch (e) {
-            handleError(e, logger);
+            if (e instanceof MutagenConfigNotFoundError) {
+                logger.verbose('mutagen config not found: ' + e.message);
+            } else {
+                handleError(e, logger);
+            }
         }
     });
 };