I wrote a few bullet points after listening to the episode, and I've expanded them from memory. I'm sorry if I'm attributing anything to you that wasn't actually said. I'd like to offer a different perspective to some of the issues raised:
- Lack of preservation
You mention the lack of preservation compared to PC and console games. I agree, however I don't think it's mainly due to lack of interest, as there's a bigger hurdle, and a reason for the bias towards other games: Most flash games are transmitted online, and played from inside the browser, and weren't saved as files on the computer. There aren't as many copies of the games because there was no need to. You just visited the website.
Also, some games involved a dedicated website backed by a server. Those are even harder to preserve unless the source code is provided.