Workflow timing

System

I am using custom scripts with my workflows that kick off submit, publish and deploy functions. Here is where I am seeing the potential for a problem: When a user kicks off a workflow and attaches their files, it will submit the files and publish an edition. At this point, it begins deploying the edition to our production servers. If another user kicks off a workflow and it submits and publishes an edition, the deployment files will see this new edition instead of the one that was created for employee number 1. If employee #1's deployments are not done when the new edition is created, the new edition will be deployed. The deployment files look for the latest edition and compare it to the one previous when getting the differences to deploy. Anyone have any suggestions on how to prevent this from happening?