Hello Bart Welch,
Thank you for using our services.
Issue #1 is caused by a bug in Sitefinity's link resolver which is run every time you save a content item. This issue has been resolved in the latest SP release - Sitefinity 3.7 SP4. The only option to overcome this issue is by upgrading to this release.
Issue #2 - if you can add the cold fusion pages to the Sitefinity's Site Map as external pages. Then they will appear in your menus and you will be able to link to them as if they are Sitefinity pages.
the Telerik team
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