A fundamental breakthrough is one that could not be developed from earlier knowledge (that required a new idea) and that formed the basis for further developments. That is, not an incremental advance.
The laser, for example, was not a fundamental breakthrough, because it was a direct development of quantum electrodynamics (which is the last fundamental breakthrough I can think of).
ADDED: QCD may be, but I can't think of any further developments it has contributed to, nor, the last I checked it out, had there been any definitive tests of its accuracy.
QED wasn't totally original, we obviously needed some earlier knowledge- like say about the photoelectric effect, black body radiation, and Maxwell's wave theory of light. Maybe the conceptual jump to QED was bigger than the jump to lasers and so maybe it is fair to say that we haven't has a big a breakthrough since. But I'm not sure what justifies putting a very small set of breakthroughs in a special category and only counting those. Is there a long enough list of breakthroughs as big as QED to even justify looking at the frequency with which they occur?
[This is a version of an first draft essay I wrote for my blog. I intend to write another version, but it is going to take some time to research, and I want to get this out where I can start getting some feedback and sources for further research.]
The responses to the recent leaking of the CRU's information and emails, has led me to a changed understanding of science and how it is viewed by various people, especially people who claim to be scientists. Among people who actually do or consume science there seem to be two broad views - what they "believe" about science, rather than what they normally "say" about science when asked.
The classical view, what I have begun thinking of as the idealistic view, is science as the search for reliable knowledge. This is the version most scientists (and many non-scientists) espouse when asked, but increasingly many scientists actually hold another view when their beliefs are evaluated by their actions.
This is the signaling and control view of science. This is the "social network" view that has been developed by many sociologists of science.
For an extended example of the two views in conflict, see this recent thread of 369 comments Facts to fit the theory? Actually, no facts at all! . PhysicistDave is the best exemplar of the idealistic view, with pete and several others having extreme signaling and control viewpoints.
I wonder how much of the fact that there hasn't been any fundamental breakthroughs in the last fifty years has to do with the effective takeover of science by academics and government - that is by the signaling and control view. Maybe we have too many "accredited" scientists and they are too beholden to government, and to a lesser extent other grant-making organizations - and they have crowded out or controlled real, idealistic science.
This can also explain the conflict between those who extol peer review, despite its many flaws, and downplay open source science. They are controlling view scientists protecting their turf and power and prerogatives. Anyone thinking about the ideals of science, the classical view of science, immediately realizes that open sourcing the arguments and data will meet the ends of extending knowledge much better than peer review, now that it is possible. Peer review was a stop gap means of getting a quick review of a paper that was necessary when the costs of distributing information was high, but it is now obsolescent at best.
Instead the senior scientists and journal editors are protecting their power by protecting peer review.
Bureaucrats, and especially teachers, will tend strongly toward the signaling and control view.
Economics and other social "sciences" will tend toward signaling and control view - for examples see Robin Hanson's and Tyler Cowen's take on the CRU leak with their claims that this is just how academia really works and pete, who claims a Masters in economics, in the comment thread linked above.
Robin Hanson's It's News on Academia, Not Climate
And Tyler Cowen in The lessons of "Climategate",
Of course, both Hanson and Cowen believe in AGW, so these might just be attempts to avoid facing anything they don't want to look at.
As I discussed earlier, those who continue to advocate the general use of peer review will tend strongly toward the signaling and control view.
Newer scientists will tend more toward the classical, idealistic view; while more mature scientists as they gain stature and power (especially as they enter administration and editing) will turn increasingly signaling and control oriented.