1. No analysis of the data. True, there are some pre-analyzed data in the file, but for those of us who wants graphs and more for show are left in the dust
2. No way to query the data, therefore you're dependant on the ctrl+f key to find who people are
3. No custom themes nor interactive addons.
4. Only data for the top 100 players.
While these limitations are okay for small scale servers, larger servers with exposures of well over 3gb of transfer a day will find these static data rather limiting.
With this in mind, I will be writing a tool to convert the stats data into sql queries and automate updates of the database using either MySQL or SQLite to provide functional and more usable data for analysis.
Preview: http://tgvserver.info/stat/players/
I will be release an alpha version of this tool soon so keep updated.