FrameMaker 2022 to PDFx1a2001 (Font embedding and annotations)

I'm having few issues that I hope to resolve...

1. I can't produce a PDFx1a2001 from FrameMaker without it giving me errors that "Annotations were found inside the BleedBox, TrimBox, or ArtBox on the following pages"... and it's practically every page in the document because there's an extensive linked index and a lot of cross-references. We are only concerned with printing to a digital press at the moment, so I'm not concerned with linked references for the print version. It would be nice to understand why this is an issue though, so when the online version goes live it will be interactive. (And I won't have to create a separate PDF for online... although that wouldn't be a tragedy if it comes to that.)

2. Depending on the distiller settings I use, I get missing font errors (Times New RomanPS MT and Times New RomanPS Italic MT) even though I have the fonts installed and Distiller has the folders in the Font Locations. I have everything set to embed (and subset) all fonts. In FrameMaker, my print settings for Adobe PDF printer have "Rely on system fonts only; do not use document fonts" unchecked. It's important to note that the majority of the book doesn't use these fonts; these are fonts that came in with imported graphics (mostly or all EPS files) that I can't modify myself because I don't have Illustrator. This has not been an issue with prior editions of the book, so it must be something in my system setup? Or did something change in FrameMaker and the way it handles fonts? (I'm wondering because we didn't have an issue with missing fonts before, but recently I discovered others that were dropped from the book and I had to re-install them. But reinstalling these two Times New Roman PS fonts is not doing the tricke.)

Thanks for any insight