I have a problem with Jira Service Desk configuration. When I create a new user with role (jira customer portal) this person have also permissions to JIRA, not only to the customer portal. What can I do in such situation? When I delete jira-users groups permission (releated to this user) the access to the portal is impossible.
Service Desk users have to be able to log into Jira - Service Desk is part of Jira and relies on Jira for most of it's data. You'll need to separate out your SD users from Jira users, while still putting them in a group that allows them to log in.
I'd usually use jira-users to JUST mean "can log in" - don't use it in permission schemes or roles in projects, let people into the areas they are allowed into via other groups and roles.
...be more productive while being fun to use at the same time. For some, getting started can be a bit intimidating. This is especially true if Jira Service Desk is your first exposure to Atlassian...
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