That doesn't look good. Almost as though the plywood underlayment was too thin and is sagging between the rafters?

there should be spaces between the butt end of the 4x8 sheets of roof sheathing and looks like the roof sheathing is buckling due to not enough spacing.

I don't see any step flashing where your roof meets your house either ....maybe the siding crew will install it though.

Tough to say from here, could be OSB roof sheathing installed improperly (personally I don't like OSB on a roof for this exact reason), plywood not properly gapped, shingles not laid properly (ie: curved bundles and not allowed to flatten) or applied not tight. Could be any number of things. They possible may lay down with summer heat after a bit of time, maybe not. Have you spoken to the builder?

Not that I am any kind of expert, what does it look like when you look up at the roof from inside the house? Is that area smooth? Is everything butted up together flush?

We asked the builder and got a blow off, so we decided to try and figure out what is going on. It appears that we are missing many of the clips for the OSB sheathing and many of the ones that are there are bent, damaged, etc. This is just one more issue we are having. At this point I wish we could honestly just walk away. We made the mistake of self-funding and purchasing the lot. This is just one example, but there are too many to post pictures of them all. We all appear to have several cracked roof trusses as the one pictured here. Thank you so much for all the comments.

I hope you don't pay him anymore until you make sure he corrects it to your satisfaction.

You need to print off the recommended spacing of the OSB and meet with your builder and ask him why this wasn't installed correctly and insist on it being done right and probably consult an attorney at this point. Is that some type of laminated beam as a header in the wall and why does another wall have a triple top plate?