Maybe it is just me, but Agenda creating links of any text that remotely looks like a link is driving me crazy. Please give us an option to turn that off.
The new release, coming soon, has some improvements for link handling.
A workaround now is to use fixed width text, such as with back ticks around the text.
Oh, almost forgot. You should be able to turn off link detection in Edit > Substitutions. Need to select a note first.
If that doesn’t stop the problem, let us know.
Aha, That did the trick. Have all substitutions turned off now.