Multiple template clean-up

[IceOfWraith]

This cleans up some items below:

• Move Ports to include file
• Move Update stages to include file
• Migrate from old ports logic to new
• Set config versions for any missing it

[IceOfWraith]

@Greelan Feel free to provide feedback on anything you want changed or if I missed some obvious things. I included the script in the PR to save for later usage. I eventually want all the templates to have the latest settings included. But I'll have to make the script include all those settings and would want them all sorted uniformly. For now this should help with the code side though, and PRs should be easier to see the differences.