| | | |
| March 7, 2025 | T | New York City FC II 2 at Crown Legacy FC 2 | Final (PK 5-4) |
| March 14, 2025 | W | Columbus Crew 2 0 at New York City FC II 2 | Final |
| March 24, 2025 | W | Carolina Core FC 1 at New York City FC II 2 | Final |
| March 30, 2025 | L | New York City FC II 2 at New York Red Bulls II 3 | Final |
| April 5, 2025 | L | New York City FC II 0 at Carolina Core FC 5 | Final |
| April 9, 2025 | T | FC Cincinnati 2 2 at New York City FC II 2 | Final (PK 5-3) |
| April 23, 2025 | L | Philadelphia Union II 4 at New York City FC II 1 | Final |
| April 26, 2025 | L | New York City FC II 1 at New England Revolution II 2 | Final |
| May 4, 2025 | L | New York City FC II 2 at Inter Miami CF II 4 | Final |
| May 9, 2025 | W | New York Red Bulls II 2 at New York City FC II 5 | Final |
| May 15, 2025 | W | Toronto FC II 0 at New York City FC II 3 | Final |
| May 23, 2025 | T | Chicago Fire FC II 2 at New York City FC II 2 | Final (PK 2-4) |
| May 31, 2025 | L | New England Revolution II 1 at New York City FC II 0 | Final |
| June 6, 2025 | W | New York City FC II 3 at Atlanta United 2 2 | Final |
| June 12, 2025 | T | New York City FC II 1 at Columbus Crew 2 1 | Final (PK 4-5) |
| July 6, 2025 | T | New York City FC II 2 at FC Cincinnati 2 2 | Final (PK 4-5) |
| July 16, 2025 | W | Toronto FC II 0 at New York City FC II 1 | Final |
| July 20, 2025 | L | New York City FC II 2 at New York Red Bulls II 4 | Final |
| July 26, 2025 | L | Philadelphia Union II 2 at New York City FC II 0 | Final |
| August 3, 2025 | W | New York City FC II 4 at Orlando City B 1 | Final |
| August 8, 2025 | T | Chicago Fire FC II 3 at New York City FC II 3 | Final (PK 4-1) |
| August 17, 2025 | | New York City FC II at Huntsville City Football Club | 7:00 p.m. |
| August 22, 2025 | | Columbus Crew 2 at New York City FC II | 7:30 p.m. |
| August 31, 2025 | | New York City FC II at Toronto FC II | 3:00 p.m. |
| September 14, 2025 | | New York City FC II at Chicago Fire FC II | 9:00 p.m. |
| September 18, 2025 | | New England Revolution II at New York City FC II | 7:30 p.m. |
| September 28, 2025 | | Chattanooga FC at New York City FC II | 7:30 p.m. |
| October 5, 2025 | | New York City FC II at Philadelphia Union II | 1:00 p.m. |
New York City FC II Schedule
