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For example, PROJ-123 as the first issue instead of PROJ-1.

I was able to do this once via a properties file but cannot seem to find it now.

+1  A: 

This article may help you out. It involves running an SQL statement against the Jira database.

mopoke
Thank you, mopoke! There is a way however to outright start a project with the intended number. That's what I was looking for.
edlftt
A: 

Ah! .. it can be done by modifying the project.pcounter field in the database.

edlftt