Kuhn's work has 58315 citations in google scholar, so there is a lot of literature. To take one example, the mind has a virtual issue on Kuhn: http://oxfordjournals.org/our_journals/phisci/kuhn_virtual_issue.html
These things are probably best studied by example. Kuhn and Feyerabend have in fact studied the history of physics, whereas critics and scientists themselves very often have not. So I think one can at least learn a lot in this regards from Kuhn. Cogent responses come from scientists themselves in many debates, although they in most cases don't reference Kuhn. The basic counter-argument is that science progresses linearly, which is a very widely held belief.
Some more modern examples of paradigm shifts or discussions around them:
The physicist Lee Smolin has written a book called the trouble with physics. This is a quite broad attack on string theory. I don't think he explicitly references Kuhn, but his arguments are very similar. The paradigm of string theory is freezing progress in physics. There are good arguments for and against. What I always find is that scientists in general are very unaware of the fact, that there has been some writing on the working of science. I can't judge about the arguments of Smolin in the end. I certainly agree with the basic sentiment. The relevance of experiments are very central in this debate.
Economics and finance
The thinker Nassim Taleb has broadly attacked quantitative finance and economics in general. This is an interesting case, because his books became bestsellers and shortly after the Black Swan was published the great financial crises happened. One could extend his argument to science in general. I mostly agree with him and others who have are very unsatisfied with economics, Steven Keen, Hyman Minksi and George Soros have written on this. There is now quite a broad movement in this direction.
This is an interesting example. The major paradigm in terms of foundations is set theory, and even though category theory has been successful it is hardly known that there is even a paradigm.
Neil Gershenfeld has come interesting views on paradigms in computer science. He said that computer science is the worst what could have happened to computers or science. Such strong statements from distinguished professors are quite rare.
Chomsky revolutionized the field in the 50s. That was a true paradigm shift. This is good case study, because the transition was very rapid. Because Chomsky is a philosopher of great importance, he is at the same time very conscious with regards to the general workings of science. He said that he couldn't get a position at a faculty first, and then, a few years later, founded modern linguistics.
Most contributions in science are in one paradigm and are not shifting the entire field. In this sense science is linear. There is always an interaction between local progress and global paradigms. I couldn't say how a good counter argument would even look like. One can certainly argue that paradigms are not so important. But to refute the existence of shifts in beliefs in science is impossible in my opinion. Perhaps one can find quite a few fields, where the general ideas are fairly stable. Chemistry after Lavoisier seems to me to be one of such cases, because of the structure of the science itself. But in biology for example the evidence is overwhelming. As soon as Crick and Watson published their findings in 1953 the world had changed. Perhaps the first half of the 20th century is a better source of pro-Kuhnian arguments than the second half.
Critic of Kuhn
What one can wonder is what the role of philosophy is, in all of this. Philosophers are partly critics of science. Dan Dennett does a good job of integrating views to coherent views. Generally Kuhn follows the stance of positivism, i.e. science is to be left as it is. Philosophers can describe aspects of it. I personally strongly disagree, but that is a different topic. In general I think everyone should read Kuhn and Feyerabend, the history of science, etc. I'm not aware of any major works explicitly declared as theory of science, besides Kuhn, Feyerabend and Popper, although I'm sure there a lot of books, articles, etc. And they would have to reference other important theories, such as those of Kuhn and Popper.
To take one random example I have researched through wikipedia (http://en.wikipedia.org/wiki/Philosophy_of_science)
"Stove became best known to the wider intellectual community for his attacks on
Karl Popper and his falsificationist philosophy of science, as well as the
influential philosophies of Thomas Kuhn and Paul Feyerabend."
Actually some of the points are quite interesting. In general, although I think Kuhn and Popper are important, I would not regard them in the same category as other major philosophers, in terms of breadth and depth of their work.