It is wrong to assume that only
stuff you put into cron.hourly
is going to execute every hour.
Use crontab, and familiarize yourself
with its syntax. The directory structure
is just a thing of convenience but doesn't
save you from trying to understand what
cron actually does.
Telling us your distro might help in getting
more to the point answers, by the way :}
Cheers,
Tink