Freshen up the project directory structure

[dglazkov]

Remove these:

• [x] coffee-bot-board
• [x] graph-integrity
• [x] graph-playground
• [x] graph-runner
• [x] llm-starter
• [x] node-nursery
• [x] pinecone-kit
• [x] team-kit

Consider removing these or moving them to ./archive:

• [ ] cloud-function
• [ ] breadboard-extension
• [ ] breadboard-server
• [ ] breadbuddy
• [ ] create-breadboard
• [ ] create-breadboard-kit

[dglazkov]

@paullewis shall we keep breadbuddy?

[paullewis]

We could repurpose it for a Chrome Extension? But if we aren't going to do that then let's get rid.