OK, having talked about the (absence of) science in McLean's reply, on with dealing with the whine with which they try to smother it.
Well, the first point is that it may be unprecedented for the authors' reply to fail to pass peer review, although conversely it may very well have happened before without my hearing about it. (FWIW, many years ago I once found out quite by chance that someone had published a "comment on" one of my papers in a journal that I didn't regularly read, and neither the author nor the editor had bothered to contact me at any point in the process.) In the AGU journals there is no automatic right of reply, there is only the right to submit a reply for the consideration of the editor. In this case, it seems that after peer review McLean et al's reply was not found to meet the standards for publication. I don't make any claim to be disinterested but on reading it, I can only agree with this judgment, specifically on the following grounds.
(A) Their reply performs a dishonest bait-and-switch in initially claiming that their analysis was not based on the filtered data, but then conversely stating that their statistics only refer to the filtered data and were never even intended to refer to long-term variation. Of course their acknowledgment of this second point means that there is not one scrap of support in the paper for their claim that the analysis "shows the potential of natural forcing mechanisms to account for most of the temperature variation" [over the last 50 years]. Their analysis simply has no bearing on any long-term trends, since they filtered them out of the data.
(B) They don't even try to address the fact that their original paper pretended that the differencing was done to reduce the noise, when in fact it amplifies noise and eliminates long-term variability
(C) they present no defence of their claim of a "stepwise shift" in the mid-1970s, which (as we pointed out) their naive statistics do not support.
There is other stuff that I could criticise in their reply, but this is more than enough to justify a rejection. They simply aren't responsive to our criticisms.
As for the stuff they quote from the hacked emails...well that's all pretty small beer. First, the most (only? IIRC) critical comment that they have reprinted from one of our three reviewers was a very reasonable complaint and I think we were all happy to make some edits to the tone of the original. Since that is available on the web, you can look for yourself to see the minor differences. There were also some useful comments from all three reviewers about clarity and references, but nothing major. As you can see, the people that we discussed proposing for reviewers are all authoritative and respected figures in the field. The complaint that they were "reasonably well known" to one of the more prominent authors is particularly laughable - there could hardly be anyone of similar experience who isn't. However, the actual choice of reviewers is the responsibility of the editor and I don't know who was used. It would certainly be amusing to know who McLean et al proposed for both their original paper and the attempted reply, but somehow I doubt they'll be prepared to divulge either this information or the full reviews that they received. I can only assume that the editor made his own choice of reviewers, which is not only his right but duty if he thinks the suggested reviewers are inappropriate. The list of suggestions is not to enable the authors to choose their reviewers, but rather to provide the editor with some help.
The complaint about "prior publication" due to placing a copy of the submitted manuscript on a personal web-page is just a petty and pathetic attempt at armchair-lawyering. The AGU explicitly endorses publication of manuscripts on a personal web-page, the only minor error was in some carelessness over the formatting which was corrected within a couple of days. This could justify a minor slap on the wrist but it is not "prior publication" by any reasonable definition, including that of the AGU. For one thing, it wasn't even put on the web-site prior to submission!
I don't see on what grounds there could possibly be any criticism of the AGU for using a different editor and reviewers from those who dealt with the original paper. Obviously, the submission of a comment may be considered an implicit criticism of those responsible for the original publication, so it is reasonable to remove this possible source of bias. But anyway, neither of these matters has anything to do with us.
I thought it was supposed to be the Poms that whinged. On this evidence, some Aussies are pushing them pretty hard. If only they had devoted as much effort to science they might have learnt something.
 "contrary to what Foster et al. (2010) imply, the data in question (Figure 7) were not subjected to contrived statistical analysis" and "we used the filtering technique solely to establish that a 7-month time lag existed between changes in the ENSO and changes in global average lower tropospheric temperature...Our substantive conclusions were then based on applying this time-lagged relationship to the raw data sets"
 "Our comments about the change in Southern Oscillation Index (SOI) accounting for 72% of the variance in satellite (MSU) GTAA, 68% of variance in the radiosonde (RATPAC-A) GTAA and 81% of variance in the tropospheric temperature in the tropics were made in the context of the discussion of our derivatives based on differentials between 12 month averages, and we stand by them. Contrary to Fea10 claims, those figures do not refer to long-term variations but only to the derivatives that were used."
 "To remove the noise, the absolute values were replaced with derivative values based on variations. Here the derivative is the 12-month running average subtracted from the same average for data 12 months later."