Identify dangers & discoveries
Make a list of the dangers and discoveries implied by the site's foundation, story, and occupants. This might include:
- Hazards that the PCs might need to deal with
- Monsters, i.e. denizens that the PCs might fight
- Clues, especially those that the PCs need to achieve their goals
- Other, smaller sites
- Non-hostile encounters with the site's denizens
- Opportunities
- Artifacts and arcana found within the site
Refer to the relevant entries in Book II, or make your own as needed.
The goal here is to identify the elements that you want to include, and those that you need to to account for. Don't worry just yet about placing them within the site, or writing them up in detail. You can do that now, if it helps you make decisions or answer questions. But it's often best to wait until you're doing the site's final write-up.