Thanks for explaining! Good to know this is being addressed.
FWIW I have not had this problem with any other pdf. But then this is the first one I’ve annotated since I installed Sonoma (I like to wait a long time after version X.0 before I jump in.)
The workaround I used: I used the Print option to “Save to PDF,” which created a new pdf file with the highlights. It’s not a great solution – I can’t link to individual highlights (I guess because DT doesn’t think it made them?) and I lost a couple of text notes. But it is less discouraging than seeing a completely un-annotated pdf after marking it up over a couple of hours.
David