Dont know if you found your answer but its a MySQL DB security config.
Do a google search for "mysql max_questions"
Here is a reference from the MySQL
http://dev.mysql.com/doc/refman/5.0/en/user-resources.html
from the 'User' part of your original question, looks like you are on a hosted environment. So you might want to talk to your hosting provider.
It may be that they have a long 'session/connection' timeout for the db connection and so they are not being released when you make the next call to the DB or slow query execution causing queries to be take a long time to execute.
Either way its a hosting issue.
The install script executes individual SQL queries for each line in the db/mysql_db.sql fie
You could try the setup and with "persistant connection" both selected and cleared and see if that helps.