They've now released a hotfix called Alpha 13b, that resolves this issue, and a few others. Steam users will be automatically updated. Non-steam users can just download Alpha 13 again.

Solved Bugs
- Critical bug with deployment system, resulting in a failure to subdivide the map into sectors.
- Punishments maxed out at five hours, regardless of what you set in the Policy screen.
- Patrol positions were not being saved properly.
- Bug in the laundry system that prevented prisoners from changing into clean uniforms.
- There is now a tooltip in the Patrols screen, to make it clearer how to assign guards to patrols.