Right now, Synergy treats each computer's monitors as one big screen. For example, if you have two computers, each with two screens for a total of four screens, only two screens will be shown in the screen layout editor (one for each computer). This is a vestigial artefact from before multi-screen support was common.
Showing multiple monitors as one big screen causes issues when they're in complex configurations relative to each other. It means that, for instance, if you had one large screen and one small screen of different dimensions, it won't appear to make sense on the screen layout editor.
Our solution to this will be to show all screens for each computer on the config screen, meaning that for each computer you'll see multiple screens (if you have multiple screens). This will allow you to accurately represent your real life screen layout on the screen layout editor.