Currently the project tree seems to be sorted by the appearance of entries in the schema files (for Propel xml files).
It would be great to have the ability to sort all the models by name.
This issue was fixed in latest version 184.108.40.2067. You can download this version here http://support.orm-designer.com/31/download-orm-designer2-here
You're right. I see the same here. This is not the intention but probably a missing "ORDER BY" command. Will be fixed in the next release.
Welcome to the Skipper support forum. This support forum covers both Skipper and its older version, ORM Designer issues.
Feel free to ask us anything about Skipper or ORM Designer. If you find any problem or glitch, or if you have an idea for an enhancement, please let us know.