Morpheus' Reaffirmation
In the final film The Matrix Revolutions, Morpheus is somewhat dispirited, and has problems in understanding now what may happen to Zion and its people. Now without a ship of his own, he and Link (the Nebuchadnezzar's Operator) reside on the hovercraft Mjolnir, commanded by Roland. Morpheus renews his conviction that Neo could still save Zion, and supports Trinity in finding Neo, whose mind is trapped in a computer netherworld called Mobil Avenue, despite not being jacked in. Morpheus is called to the Oracle with Trinity, and with the Oracle's guardian, Seraph, he helps Trinity rescue Neo, via a visit to the Merovingian's lair and a Mexican Standoff.
Morpheus says farewell to Neo and Trinity before they leave for the Machine City in the hovercraft Logos to stop the war. Morpheus then aids Niobe as she flies the Mjolnir in a desperate ride back to Zion. The ship successfully stops the first onslaught of the Machine attack with the ship's electromagnetic pulse weapon.
When the Sentinels suddenly stop a second wave of attacks, Morpheus realises that Neo is somehow fighting for them. When the Sentinels retreat after Neo defeats the former Agent Smith, now a virus that has threatened both humans and machines, Morpheus and Niobe embrace in celebration as cheers arise from the Zion population, who have received a brokered peace through Neo's sacrifice.
Of the original Nebuchadnezzar crew in the Matrix, Morpheus is the only surviving member to see freedom for Zion.
Referring to the subjectivity of reality throughout the film trilogy, Morpheus' last line in Matrix Revolutions, said in disbelief as the Sentinels retreat from Zion, is "Is this real?".
Read more about this topic: Morpheus (The Matrix)