Yet, the Fratton faithful were left disappointed as they saw their side lose 4-1 against Sheffield Wednesday on the final day.
With a strong Blues contingency in South Yorkshire, the former Lincoln boss was full of admiration of the Blue Army’s loyal support.
Following the defeat, Cowley told The News: ‘Our fans were incredible. To bring 2,500 fans to a game where we were just playing for pride was just amazing really.’
We’ve chosen 12 of the best photos of Pompey supporters from the season’s finale at Hillsborough.
9. Pompey fans at Hillsborough
Was rather quieter without John Westwood's bugle at Hillsborough. Photo: Paul Thompson
10. Pompey fans at Hillsborough
The reaction says it all after George Byers scored Wednesday's fourth. Photo: Paul Thompson
11. Pompey fans at Hillsborough
Whatever the result and the season, the Fratton faithful continued their loyal support on Saturday afternoon. Photo: Paul Thompson