Had my roof membrane replaced last year (under warranty) when I noticed bubbles. They rose 3-4 feet off the roof while I was pulling down the road, looked like I was pulling a mushroom.
We camped in 114 degrees for 4 days and suppose the adhesive liquified and failed.
In a nut shell the dealer told me that it would all have to come off and new put on. The new when we picked it up had some ripples in it too, but looking at it now those seem to have tightened out.
I would suggest that you have the dealer look at it and make a note in case you need to bring it in a year from now if things worsen. Our dealer told us that the factory uses a cheaper adhesive, and the one they use is a Gorilla Glue.
(Doubt it but it sounded good coming from him)