Northland had their chances to extend the lead throughout the game but their inability to find the back of the net came back to haunt them in the closing stages of the second half.
In the penultimate minute, Charlotte Eastman nabbed the equiliser, sending the game to a penalty shootout.
Jess Pilmer was the first one up for Northland but was unable to get through Capital goalkeeper Ginny WIlson.
Northland's goalkeeper Nicola Howes then stepped up to stop Felicity Reidy from gaining the advantage.
Northland and Capital traded goals through Maddi McLean (Northland) and Harriet McFetridge.
Both sides then missed goals, leaving them tied at one a piece after three attempts.
The pivotal moment came in the fourth attempts. Wilson came up with a save to deny Kelsey Eaton and gave Capital an opening to get a lead.
Reidy stepped up and made up for the one she missed earlier to give Capital a 2-1 lead with one shot remaining.
Captain Alana Millington gave Northland a chance with a successful attempt, but it was in vain as Katherine van Woerkom nailed the clincher for Capital.
Meanwhile, Canterbury took out the women's competition with a 3-2 win over North Harbour.
Goals from Olivia Merry, Joie Leigh and Jenny Storey steered Canterbury to the title.
In the men's competition, Northland didn't factor on the finals day after they went winless through the competition.
Midlands took out the men's competition, powering to a 3-1 win over Canterbury.
A double from striker Connor Herewini was complimented by a Joseph Lyons strike to lead Midlands to the title.
