In each mission, the agency infiltrates a facility belonging to one of the corporations. The main objective depends on the type of mission. When playing with the Contingency Plan DLC, some facilities also have a side-mission.

In typical missions, the main objective and any other objectives are always optional; it is possible to exit the mission without completing or even attempting them. However, you must always find the exit room and use the teleporter to complete the mission. Missions are failed if all agents who entered the mission are lost in the field.

	Mission	Objective
	Chief Financial Suite	Scan the Financial Executive's brain to acquire a Vault Access Card.
	Cybernetics Lab	Use Augment Grafters to install new augments or augment sockets, and possibly use an Augment Drill to remove a currently-installed augment.
	Detention Center	Rescue a new agent, or an agent lost in the field, or a Prisoner.
	Executive Terminals	Loot the Site List from the Executive Access Terminal to add new mission options to the world map.
	Nanofab Vestibule	Use an unlocked nanofabricator to buy new items, weapons and augments.
	Security Dispatch	Loot a high-value item or weapon from the Secure Locker, and possibly rescue a Courier.
	Server Farm	Access a Primary Server Terminal to buy new programs for Incognita.
	Vault	Loot credits and Research Experiments from the vault.