From what you wrote I understand you have recoated part or all of your floors?
Have you only treated part of the floors, or you have coated the entire area? Blisters may usually appear when:
- The coating is done directly onto old finish without good clean of the surface and without using Bona Crosslinker - when recoating wooden floors at least buffing with a light screen is recommended prior to application
- Previous coats and new coats are not compatible - Bona is a waterbased product - was the previous finish waterbased or a compatible one?
This is basically a coat, which has a poor bond with the finish below. Unfortunately, I cannot think of an easy way of rectifying this without proper floor sanding and refinishing.