The paint bubbles are usually caused by one of two things and I'll explain both.
1 - Moisture trapped under a cover - As the temperature fluctuates the water can heat up under a cover and vaporize and seep (for lack of a better term) under the paint. Once the car is uncovered the trapped moisture will heat up under the sun and start bubbling up as the air escapes, usually around lowpoints and body seams but this can occur anywhere. If your paint guy is really good it can be repaired, if he isn't absolutely certain he can fix it don't let him touch it because you can end up with a polka dot Vette. All covers claim to prevent this damage but even the best cover should be removed every couple months on a clear day just to air out the paint and seals. If you get a lot of rain or humidity, you should do it even more often.
2 - Oil/grease in the fiberglass - This is a problem unique to fiberglass cars. If your car was ever stripped and repainted or ever had any body work done, grease or oil may be trapped in the glass. This doesn't mean anyone spilled it but rather something as simple as a greasy fingerprint could have ben left on the car prior to painting. If the grease isn't removed immediately it will seep into the glass and the only solution is to cut out that section of glass and replace because there is no way to get the oil out. Even if you strip the glass and scrub it clean the oil is still there below the surface and will always seep. I've actually seen these oil bubbles in the pattern of a handprint around the back of a hood. I don't know the details but this is also common around the A/C unit. And as for the painted hood underside - oil can penetrate most paints over time.
The only way to know which it is is to cut a bubble out. I've never done this myself and would let a pro do it. If the bubble is only a couple of layers of paint, it's probably moisture vapor damage. If you see fiberglass it could be oil, you then have to test the surface. If it feels oily your through, if it doesn't, spray a mist on it and let sit for a minute to see if the oil bubbles out then feel it again. Oil damage can NOT be fixed without replacing fiberglass. If the bubbles are few, and you fix the cause you're probably best to leave them be and pray you don't get more.
Good Luck!