Well, if those dont work, you can copy the saves from pj64 and import them yourself.
1. Copy PJ64 saves to 1964 save folder.
2. Look for similar files and file types between the pj64 saves and the rom you want to import the save to. If there is no 1964 save, then run the rom on 1964 to create one (done when starting the rom).
3. Copy the name of the 1964 (should have a long string of letters and numbers after the rom name). Delete the 1964 save file (only the one that has a similar file extension as the pj64). Rename the pj64 save file and paste the 1964 save file name into it instead.
4. Test it out and have fun.
That's what i did and it worked ^.^