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Vulnerable To:
Protoss vs Protoss
When its time to unleash your one and only Mothership upon a Protoss opponent, ensure you give it adequate cover and back-up with a decent aerial force of Carriers and Phoenix units to guard it from Void Ray attack.. Strategically applying the Mothership's Cloaking Field and Mass Recall abilities will allow you to exert major control over the battlefield and the flow of the action. A large formation of Stalkers may be able to wear down your defences, though.
Protoss vs Terran
The Vortex is a fantastic ability with which to instantly disable large concentrations of Terran units at the prime moment, and following it up with a Mass Recall can be a great assault tactic against entrenched enemy bases. Vikings have the long range capability to harm a Mothership, and the Ghost's ever useful EMP will drain its energy and cause damage at the same time.
Protoss vs Zerg
Use the Mothership and its Mass Recall to buttress locations under attack from large concentrations of Zerg Units, enabling you to nullify your enemy's advantage in numbers with mobility. Swarm formations of Mutalisks will need to be kept at bay by your accompanying aerial units, while Corruptors are capable of blasting a Mothership out of the sky, if given the opportunity.