diff --git a/cmd/run.go b/cmd/run.go
index 71d97e3f..29b06d37 100644
--- a/cmd/run.go
+++ b/cmd/run.go
@@ -20,6 +20,7 @@ import (
 	"os"
 	"path/filepath"
 	"runtime"
+	"slices"
 	"strconv"
 	"strings"
 	"time"
@@ -27,6 +28,7 @@ import (
 	"golang.org/x/mod/semver"
 
 	"github.com/spf13/cobra"
+	"github.com/spf13/pflag"
 	"github.com/spf13/viper"
 
 	daprRuntime "github.com/dapr/dapr/pkg/runtime"
@@ -78,18 +80,13 @@ const (
 	runtimeWaitTimeoutInSeconds = 60
 )
 
-// Flags that are incompatible with --run-file
-var runFileIncompatibleFlags = []string{
-	"app-id", "app-port", "app-protocol", "app-max-concurrency",
-	"app-ssl", "app-channel-address", "enable-app-health-check",
-	"app-health-check-path", "app-health-probe-interval",
-	"app-health-probe-timeout", "app-health-threshold",
-	"config", "dapr-http-port", "dapr-grpc-port",
-	"dapr-internal-grpc-port", "enable-profiling", "profile-port",
-	"dapr-http-max-request-size", "dapr-http-read-buffer-size",
-	"metrics-port", "placement-host-address", "scheduler-host-address",
-	"components-path", "resources-path", "unix-domain-socket",
-	"enable-api-logging", "dapr-listen-addresses", "log-level",
+// Flags that are compatible with --run-file
+var runFileCompatibleFlags = []string{
+	"kubernetes",
+	"help",
+	"version",
+	"runtime-path",
+	"log-as-json",
 }
 
 var RunCmd = &cobra.Command{
@@ -1084,6 +1081,18 @@ func getRunFilePath(path string) (string, error) {
 	return path, nil
 }
 
+// getConflictingFlags checks if any flags are set other than the ones passed in the excludedFlags slice.
+// Used for logic or notifications when any of the flags are conflicting and should not be used together.
+func getConflictingFlags(cmd *cobra.Command, excludedFlags ...string) []string {
+	var conflictingFlags []string
+	cmd.Flags().Visit(func(f *pflag.Flag) {
+		if !slices.Contains(excludedFlags, f.Name) {
+			conflictingFlags = append(conflictingFlags, f.Name)
+		}
+	})
+	return conflictingFlags
+}
+
 // detectIncompatibleFlags checks if any incompatible flags are used with --run-file
 // and returns a slice of the flag names that were used
 func detectIncompatibleFlags(cmd *cobra.Command) []string {
@@ -1091,14 +1100,6 @@ func detectIncompatibleFlags(cmd *cobra.Command) []string {
 		return nil // No run file specified, so no incompatibilities
 	}
 
-	var incompatibleFlags []string
-
-	// Check each incompatible flag to see if it was explicitly set
-	for _, flagName := range runFileIncompatibleFlags {
-		if cmd.Flags().Changed(flagName) {
-			incompatibleFlags = append(incompatibleFlags, flagName)
-		}
-	}
-
-	return incompatibleFlags
+	// Get all flags that are not in the compatible list
+	return getConflictingFlags(cmd, append(runFileCompatibleFlags, "run-file")...)
 }
diff --git a/cmd/run_test.go b/cmd/run_test.go
index 4d733a4c..5ac0796f 100644
--- a/cmd/run_test.go
+++ b/cmd/run_test.go
@@ -33,12 +33,16 @@ func TestDetectIncompatibleFlags(t *testing.T) {
 		cmd := &cobra.Command{Use: "test"}
 		cmd.Flags().String("app-id", "", "")
 		cmd.Flags().String("dapr-http-port", "", "")
-		cmd.Flags().String("kubernetes", "", "") // Compatible flag
+		cmd.Flags().String("kubernetes", "", "")   // Compatible flag
+		cmd.Flags().String("runtime-path", "", "") // Compatible flag
+		cmd.Flags().String("log-as-json", "", "")  // Compatible flag
 
 		// Mark flags as changed
 		cmd.Flags().Set("app-id", "myapp")
 		cmd.Flags().Set("dapr-http-port", "3500")
 		cmd.Flags().Set("kubernetes", "true")
+		cmd.Flags().Set("runtime-path", "/path/to/runtime")
+		cmd.Flags().Set("log-as-json", "true")
 
 		// Test detection
 		incompatibleFlags := detectIncompatibleFlags(cmd)
@@ -46,5 +50,29 @@ func TestDetectIncompatibleFlags(t *testing.T) {
 		assert.Contains(t, incompatibleFlags, "app-id")
 		assert.Contains(t, incompatibleFlags, "dapr-http-port")
 		assert.NotContains(t, incompatibleFlags, "kubernetes")
+		assert.NotContains(t, incompatibleFlags, "runtime-path")
+		assert.NotContains(t, incompatibleFlags, "log-as-json")
+	})
+
+	t.Run("no incompatible flags when run file not specified", func(t *testing.T) {
+		// Create a test command with flags
+		cmd := &cobra.Command{Use: "test"}
+		cmd.Flags().String("app-id", "", "")
+		cmd.Flags().String("dapr-http-port", "", "")
+
+		// Mark flags as changed
+		cmd.Flags().Set("app-id", "myapp")
+		cmd.Flags().Set("dapr-http-port", "3500")
+
+		// Temporarily clear runFilePath
+		originalRunFilePath := runFilePath
+		runFilePath = ""
+		defer func() {
+			runFilePath = originalRunFilePath
+		}()
+
+		// Test detection
+		incompatibleFlags := detectIncompatibleFlags(cmd)
+		assert.Nil(t, incompatibleFlags)
 	})
 }