The 2003–04 Moldovan Cup was the 13th season of the Moldovan annual football cup competition. The competition ended with the final held on 30 May 2004.
The first legs were played on 1 October 2003. The second legs were played on 22 October 2003.
| Team 1 | Agg. | Team 2 | 1st leg | 2nd leg |
|---|---|---|---|---|
| Olimpia | 0–6 | Zimbru | 0–4 | 0–2 |
| Unisport-Auto | 7–4 | Roso | 3–1 | 4–3 |
| Dacia | 11–0 | Florești | 9–0 | 2–0 |
| Energhetic | 1–2 | Agro | 0–1 | 1–1 |
| Slobozia Mare | 0–4 | Nistru | 0–4 | w/o |
| Steaua | 0–9 | Sheriff | 0–3 | 0–6 |
| Tiraspol | 12–1 | FCA Victoria | 7–0 | 5–1 |
| Dinamo | 3–2 | Tiligul | 2–1 | 1–1 |
The first legs were played on 5 November 2003. The second legs were played on 13 November 2003.
| Team 1 | Agg. | Team 2 | 1st leg | 2nd leg |
|---|---|---|---|---|
| Tiraspol | 0–2 | Zimbru | 0–0 | 0–2 |
| Dacia | 2–0 | Agro | 1–0 | 1–0 |
| Unisport-Auto | 0–4 | Sheriff | 0–2 | 0–2 |
| Dinamo | 1–6 | Nistru | 0–3 | 1–3 |
The first legs were played on 4 April 2004. The second legs were played on 14 April 2004.
| Team 1 | Agg. | Team 2 | 1st leg | 2nd leg |
|---|---|---|---|---|
| Dacia | 1–2 | Zimbru | 0–1 | 1–1 |
| Sheriff | 4–2 | Nistru | 3–1 | 1–1 |
