Add flutter prefix to import (#49793)

This keeps things consistent with other imports and fixes the internal breakage (b/320443454).

While the build system here is able to handle imports both with and without the flutter prefix, the internal mechanism that rewrites these imports is currently unable to handle the latter case.

Author: jiahaog

shell/common/run_configuration.cc

@@ -12,7 +12,7 @@
 #include "flutter/fml/file.h"
 #include "flutter/fml/unique_fd.h"
 #include "flutter/runtime/dart_vm.h"
-#include "runtime/isolate_configuration.h"
+#include "flutter/runtime/isolate_configuration.h"
 
 namespace flutter {