austtr - 6:04 pm on Jan 13, 2013 (gmt 0)
Since the OP, I've put the site through a Googlebot search simulator and while I have not had time to fully review the results, a quick look seems to indicate problems. I'm pretty sure some (possibly a lot) of nav links are not being seen.
I'm guessing the issues that SE's have with .js files might be the core issue.
The sites in question are destination guides that have wide ranging content. Country, states/provinces, regions, major cities, attractions and activities plus a raft of resources such as accommodation options, tours, rentals, insurance etc etc. The intent of drop-down nav in sites like this is to allow the viewer to go direct to their pages of interest instead of having to drill down page by page.
So much for good intentions.....