The venues are definitely off, there's also a list in a different thread somewhere.
Technically Los Angeles is the most played city since West Hollywood, North Hollywood etc. are parts of LA.
Actually I started working on a statistics page a while ago, it's about halfway finished, with most played countries, US states, cities, venues excluding canceled shows and also no Third Encore. The page is locked but here's a screenshot.
Suggestions are appreciated, I want to do as much as possible with database queries, which is not possible for the venues though so that has to be updated manually.
Another tiny thing that I noticed you counted 988 shows, while the database says 989 did you include the Relative Degree show?
It didn't occur to me at all that we can actually figure out the 1000th show as Linkin Park, I thought we'd never know for sure since there are so many gaps in the beginning.
897 played shows but that still includes HT/Xero shows and a few Third Encore performances that were not public.