Hello there,

If you do a corret degassing (proper chamber, full vacuum) you'll notice that even a crystal clear resin still degasses quite a lot of air. Even if you just degas your resin without stirring and without adding hardener, there will be air inside your resin. This is a physical effect, and absolutely unavoidable. Think of  the ocean: fishes ares able to get oxygen of of the water. And there is no visible air trapped.
This small amount of air is might not be the problem in a infusion, as there is a pressure gradient through your part. Only the resin at the resin front is at vacuum strong enough to pull air out of the resin. But if you clamp of the resin line to early, you'll end up with your whole part under allmost full vacuum. And as the resin does not flow anymore, the small amounts of degassed air have no where to go, but to stay in the cloth. There the small bubbles collect and form greater ones, typically at the small gaps between crossing fibres.
I am 100% sure that more resin/later clamp of will solve your problem, but will end up in a slightly heavier part.
Alternatively you could degas your resin at a higher vacuum, than the final pressure in your cavity, to ensure that there will be no degassing.

Well water at a molecular level is a product of oxygen and hydrogen, so of course there will always be air in the ocean for fish to breathe - without the oxygen you wouldn't have water. It is possible to completely degass an epoxy - assuming of course that it is a 100% solids epoxy; solvents will outgass forever - it just generally takes quite a long time and in most cases takes up far too much of the workable pot-life. It is also mostly unnecessary, as once the resin has 'foamed' and then collapsed, there is only a small amount of air left in the resin.