FWIW I've used several other education-oriented packages to teach myself, as a mature-age whatsit. These include Sanbox Gamemaker and Alice - both specifically designed for students, by teachers and I've found Construct2 to be superior in every way.
The main issues I have with the interface is, while it's good and makes every effort...., well that's the thing - it shows that it was written by a programmer 'making the effort'. So the logic of the layout makes sense to a programmer like yourself, but I can't inherently understand why behaviours are over there and actions are over here.
In effect, it slows down the learning. When I was a kid, and still now, I wanted to jump ahead - I'd grasp the concept and want to start applying it. It's how humans are built. While the manual and tooltips are good, the program and manual don't combine to 'mentor' people to jump ahead and use their initiative. This is very limiting to its education potential.
I've just done a really easy (and dare I say, patronising) course in Design at Udacity and it was actually really great for ramming home these concepts of Good Design. The users need to shape the interface and even the manual. That's the message I got from that course. And, I'm tinkering with a way to make this happen in a manner that doesn't interfere - in fact streamlines your workflow.
Think of it like a startup - again I got this from a good Udacity course - Steve Blank says: 'No business survives first contact with it's customers' - the message being, you keep adapting. Apply this to interface design and you'd maybe try to implement a modular layout.
2 precedents: Foobar and Scrivener. Both let you interact and reshape the UI. Scrivener is especially nice because it allows you to work in fragments - this would be excellent if applied to Construct2. I guess you can have multiple layouts - so it's similar.
If users could manipulate the workspace and then save and share those manipulations as templates it does 2 things:
1. improves the app
2. reduces your workload
2b. increases goodwill... and so forth.
A collaborative Sourceforge style workspace could be created where people could share these templates. You could also get people from art communities involved - where they specialise in UI design.
I have a plan to monetise and make this self-supporting, so please get in touch to register your interest, because I think most of the work could be profitably outsourced in a responsible and community-oriented way. I'm having chats with Crowdtilt about it, and we'll see.