Jerome,
I've done both. I had tons of bubbles in my initial frame taping because I used a "saline tape" which didn't want to lay flat on the hull bottom curves. This type of tape has a lock thread on one edge which makes it want to go straight. There isn't much that's straight on a i550 so that tape was a real pain in my side. I recommend biaxial tape for that purpose now because it will conform to the curves and puts all the fibers going across the joint. Anyway, I cut out lots of bubbles, filled them with silica filler because they were inside corners and then glassed over them. Make sure you have a 2"-3" overlap onto the surrounding area so that you get a good mechanical bond between the 2 layers of glass. Fair them out and move on.
Cheers, Kevin.