You will have to go through two separate checks of your documents, one before boarding and one after arrival.
- Airline employees will try to make sure that all passengers have the right to enter the destination country before the airplane departs. If they fail to do so, the airline will be fined, and the airlines have established their own administative procedures for these checks.
- Immigration officials will make the actual decision if you can enter the destination country after the aircraft has landed.
For the second check, your Irish passport is all you need. For the first check, your Filipino passport may be necessary because that is what the airline's database says. The airline employees should accept the Irish passport instead of the visa. You can't board with just your Filipino passport and no visa, of course.
@phoog etc, as I understand it there is a Filipino passport without visa and an Irish passport, so she cannot use just the Filipino passport, but the airline expects to see the Filipino passport.