1. non-trivial info/settings screens too hard to create - no support for dialogues etc. Almost as hard as the game itself, requiring a lot of sprites, events and event hacks (as much as the game itself)
2. Difficult to handle swipe gesture on mobile, which breaks button handling. I.e. swipe in/out different configuration/info screens.
3. No ability to create libraries or cut and paste code across projects, requires a lot of re-entering and maintaining of duplicate code.
Great product other than this.