-> Query cache will be disabled
-> Thread cache will be disabled
A good start is to run mysql tuner to see what it recommends - http://mysqltuner.com/ Recommednations will vary on your server, based upon processor size and installed memory.
Finally - if you're seeing fragmentation reported for your mysql database, schedule a cronjob to defragment it nightly;
Automating mysql defragmentation using cron
You can run mysqlcheck using cron automatically.
Open your crontab -e and add following line in it:
0 4 * * * mysqlcheck -Aos -u USER -pPASS > /dev/null 2>&1
Above will run mysqlcheck daily at 4AM.
Report your issues and feature requests;