They just need more time to improve and refine and then refine some more. I know anime fans are pushing back hard on this but they have to understand that we are witnessing an extremely fresh growth of this new wave of 3D anime. This is like the anime version of the PS1/PS2 generation where things looked blocky and ugly, but had heart to them. I like that these studios are trying their hand at CGI and 3D to attempt to innovate the medium. Here's another preview to a project that blends these elements together really well.
I think eventually one of the teams will figure out the framerate issue and another team may figure out the frame by frame quality issue. I also think the end game is where we reach the point of 3D anime looking so good that you can barely tell, like that infamous Paperman short from Disney:
Regardless, some of these studios are miles ahead of what we had to endure last decade.