Try going into the debugging area if CF Admin and making sure that it is 
logging pages that run longer than X seconds.  Set it to 60 seconds or so and 
watch which files show up in the logs.  Then, run those files in development 
with the full debugging turned on and see if 1) there are sql statements or 
stored procedure calls that take a long time  2) if the page calls many sub 
pages and any of them take a long time to run.

Most likely you will identify a few key pages that everyone runs that are very 
cpu intensive.  

Here are a few of the things I 'fix'

rewrite queries that take a long time if possible (adding indexes to tables may 
help)

rewrite stored procedures

look for queries that are called on every page or repeatedly on the same page 
(in a loop) that can be cached.  You may find that you have 3-5 queries in your 
application.cfm page that run for every request that pull back the same 
information.  Running these could take a tenth of a second or more, adding load 
to CF, the database, lag time to connect, etc.

If you have a page with a loop with a query inside it and the only thing in the 
query that changes is the primary key, try rewriting the query so that you can 
put it on the outside of the loop and use a query of query inside the loop.  
i.e. you have a query called 100 times (loop 1 to 100), each time returning 1 
row.   Rewrite to return all 100 rows, place outside loop.  Inside loop, query 
the 100 row record set for the individual row.  this cuts database connects 
from 100 to 1.

If you are running MS Access, get rid of it :-)

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